Carg26997 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg26997
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	pentatricopeptide repeat-containing protein At5g02860
Location	Cucurbita_argyrosperma_scaffold_331 : 108546 .. 109646 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGGGTATGCCTTGGAGTAAAATTGCTGCCATTGTTGATAGCATGAAGAGTTCCGGGGTTGCCCCAGATTTGTGTACATATAATACGCTTATTAGCAGTTGTTGCAGAGGGTCATTGTATAAAGAAGCAGCAAAGGTGTTTGAAGAAATGGAAGCAGCTGGGTTTAGTCCTGATAAAGGTTACTTACAACGCGTTGTTGGATGTGTATGGGAAGTCTCGACGGCCTAAGGAAGCAATGGAGGTTTTGAAGGAGATGGAATCGAGCCGTTTTGCGCCAAGTATTGTGAGTTATAATTCATTGATATCTGCTTATGCGCGGGACGGTTTGTTAGATGAAGCTATGGAGCTAAAAAGACAGATGATGGAGAAGGGGATTGAGCATGATGTTTTTACTTACACGACGTTGTTGTCTGGTTTCGAGAAGACGGGAAAGGACGATTGTGCGATGAGAGTATTTGATGAGATGAGAGTTGCAGGGTGCCAACCGAATATATGCGCATTCAATGTGTTGATTAAGCTGCACGGTAAGAGGGGGAATTTCGTGGAGATGATGAAGGTTTTCAAGGAGATTAAGGTATGCGAGTTTGCGCCTAATATTGTTACTTGGAACACACTTTTGACCGTGTCTGGGCAAAATGGGATGGATTGTGAGATCTCACGAGTGTTCAGAGAGATGGAAAGGGCAGGTTTTGTGGCTGAGAGGGACACTTTCAACACTCTAATAAGCGATTTTAGTAGATGTGGTTCGTTCGACCAAGTCATGGCTATCTATCGAAGAATGTTGGATGCTGGGTTCGCTTCGATCTGCCGACGTACAATACCGTTTTAGCATCCTTGGCTCGGAGAGGCCTTTGGGAGCAGTCGGAGATAGTGCTCGCCGAAATGAAGAACGGTCGGTGTAAACCTAATGAGTTAACGTATTGTTCTTTACTGCATGCTTATGTCAATGGCAAAGAGATCCGGCGGGTGTCTGCACATGCTGAGGAAATCTATGCCAGCATTATTGAACCTCAAGCTATGCTTTTGAAGACATTGGTTTTGGTTTATAGTAAAAGCGATCTTTTGATGGAGACCGAGCGTGCTTTCTTCGAACTTAGGTAG

mRNA sequence

ATGGGTATGCCTTGGAGTAAAATTGCTGCCATTGTTGATAGCATGAAGAGTTCCGGGGTTGCCCCAGATTTGTGTACATATAATACGCTTATTAGCAGTTGTTGCAGAGGGTCATTGTATAAAGAAGCAGCAAAGTCTCGACGGCCTAAGGAAGCAATGGAGGTTTTGAAGGAGATGGAATCGAGCCGTTTTGCGCCAAGTATTGTGAGTTATAATTCATTGATATCTGCTTATGCGCGGGACGGTTTGTTAGATGAAGCTATGGAGCTAAAAAGACAGATGATGGAGAAGGGGATTGAGCATGATGTTTTTACTTACACGACGTTGTTGTCTGGTTTCGAGAAGACGGGAAAGGACGATTGTGCGATGAGAGTATTTGATGAGATGAGAGTTGCAGGGTGCCAACCGAATATATGCGCATTCAATGTGTTGATTAAGCTGCACGGTAAGAGGGGGAATTTCGTGGAGATGATGAAGGTTTTCAAGGAGATTAAGGTATGCGAGTTTGCGCCTAATATTGTTACTTGGAACACACTTTTGACCGTGTCTGGGCAAAATGGGATGGATTGTGAGATCTCACGAGTGTTCAGAGAGATGGAAAGGGCAGGTTTTGTGGCTGAGAGGGACACTTTCAACACTCTAATAAGCGATTTTAGTAGATGTGCATCCTTGGCTCGGAGAGGCCTTTGGGAGCAGTCGGAGATAGTGCTCGCCGAAATGAAGAACGGTCGGTGTAAACCTAATGAGTTAACGTATTGTTCTTTACTGCATGCTTATGTCAATGGCAAAGAGATCCGGCGGGTGTCTGCACATGCTGAGGAAATCTATGCCAGCATTATTGAACCTCAAGCTATGCTTTTGAAGACATTGGTTTTGGTTTATAGTAAAAGCGATCTTTTGATGGAGACCGAGCGTGCTTTCTTCGAACTTAGGTAG

Coding sequence (CDS)

ATGGGTATGCCTTGGAGTAAAATTGCTGCCATTGTTGATAGCATGAAGAGTTCCGGGGTTGCCCCAGATTTGTGTACATATAATACGCTTATTAGCAGTTGTTGCAGAGGGTCATTGTATAAAGAAGCAGCAAAGTCTCGACGGCCTAAGGAAGCAATGGAGGTTTTGAAGGAGATGGAATCGAGCCGTTTTGCGCCAAGTATTGTGAGTTATAATTCATTGATATCTGCTTATGCGCGGGACGGTTTGTTAGATGAAGCTATGGAGCTAAAAAGACAGATGATGGAGAAGGGGATTGAGCATGATGTTTTTACTTACACGACGTTGTTGTCTGGTTTCGAGAAGACGGGAAAGGACGATTGTGCGATGAGAGTATTTGATGAGATGAGAGTTGCAGGGTGCCAACCGAATATATGCGCATTCAATGTGTTGATTAAGCTGCACGGTAAGAGGGGGAATTTCGTGGAGATGATGAAGGTTTTCAAGGAGATTAAGGTATGCGAGTTTGCGCCTAATATTGTTACTTGGAACACACTTTTGACCGTGTCTGGGCAAAATGGGATGGATTGTGAGATCTCACGAGTGTTCAGAGAGATGGAAAGGGCAGGTTTTGTGGCTGAGAGGGACACTTTCAACACTCTAATAAGCGATTTTAGTAGATGTGCATCCTTGGCTCGGAGAGGCCTTTGGGAGCAGTCGGAGATAGTGCTCGCCGAAATGAAGAACGGTCGGTGTAAACCTAATGAGTTAACGTATTGTTCTTTACTGCATGCTTATGTCAATGGCAAAGAGATCCGGCGGGTGTCTGCACATGCTGAGGAAATCTATGCCAGCATTATTGAACCTCAAGCTATGCTTTTGAAGACATTGGTTTTGGTTTATAGTAAAAGCGATCTTTTGATGGAGACCGAGCGTGCTTTCTTCGAACTTAGGTAG

Protein sequence

MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAAKSRRPKEAMEVLKEMESSRFAPSIVSYNSLISAYARDGLLDEAMELKRQMMEKGIEHDVFTYTTLLSGFEKTGKDDCAMRVFDEMRVAGCQPNICAFNVLIKLHGKRGNFVEMMKVFKEIKVCEFAPNIVTWNTLLTVSGQNGMDCEISRVFREMERAGFVAERDTFNTLISDFSRCASLARRGLWEQSEIVLAEMKNGRCKPNELTYCSLLHAYVNGKEIRRVSAHAEEIYASIIEPQAMLLKTLVLVYSKSDLLMETERAFFELR

Homology

[Close]

BLAST of Carg26997 vs. NCBI nr
Match: BAT93365.1 (hypothetical protein VIGAN_07231300 [Vigna angularis var. angularis])

HSP 1 Score: 130.6 bits (327), Expect = 9.4e-27
Identity = 66/90 (73.33%), Postives = 77/90 (85.56%), Query Frame = 0


Query: 222 ASLARRGLWEQSEIVLAEMKNGRCKPNELTYCSLLHAYVNGKEIRRVSAHAEEIYASIIE 281
           A+LAR GLW+QSE VLAEMK+GRCKPNE++Y SLLHAY NGKEI R++A AE+IY+  IE
Sbjct: 24  AALARGGLWQQSEKVLAEMKDGRCKPNEMSYSSLLHAYTNGKEIERMNALAEDIYSGSIE 83

Query: 282 PQAMLLKTLVLVYSKSDLLMETERAFFELR 312
              +LLKTLVLV SKSDLLM+TERAF ELR
Sbjct: 84  THPVLLKTLVLVNSKSDLLMDTERAFLELR 113

[Close]

BLAST of Carg26997 vs. NCBI nr
Match: XP_010271739.1 (PREDICTED: pentatricopeptide repeat-containing protein At5g02860 [Nelumbo nucifera])

HSP 1 Score: 105.1 bits (261), Expect = 4.2e-19
Identity = 51/67 (76.12%), Postives = 58/67 (86.57%), Query Frame = 0


Query: 245 CKPNELTYCSLLHAYVNGKEIRRVSAHAEEIYASIIEPQAMLLKTLVLVYSKSDLLMETE 304
           CKPNE+TYCSLLHAY NG EI R+ A AE+IY+ +IEP A+L+KTLVLV SKSDLLMETE
Sbjct: 567 CKPNEITYCSLLHAYANGNEIERMRALAEDIYSGVIEPHAVLVKTLVLVNSKSDLLMETE 626

Query: 305 RAFFELR 312
           RAF ELR
Sbjct: 627 RAFLELR 633

HSP 2 Score: 62.0 bits (149), Expect = 4.1e-06
Identity = 30/39 (76.92%), Postives = 31/39 (79.49%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSL 40
           MGMPWSKI AIVD MK+ GV PD  TYNTLIS C RGSL
Sbjct: 267 MGMPWSKILAIVDRMKNEGVLPDSYTYNTLISCCRRGSL 305

[Close]

BLAST of Carg26997 vs. NCBI nr
Match: PKI71357.1 (hypothetical protein CRG98_008216 [Punica granatum])

HSP 1 Score: 75.1 bits (183), Expect = 4.7e-10
Identity = 35/45 (77.78%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAAK 46
          MGMPW+KI  IVD MKSSGVAPDL TYNT+IS C RGSLY+EAA+
Sbjct: 23 MGMPWNKIVGIVDGMKSSGVAPDLYTYNTIISCCRRGSLYEEAAE 67

[Close]

BLAST of Carg26997 vs. NCBI nr
Match: POE44543.1 (pentatricopeptide repeat-containing protein [Quercus suber])

HSP 1 Score: 71.2 bits (173), Expect = 6.8e-09
Identity = 31/44 (70.45%), Postives = 37/44 (84.09%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAA 45
           M  PW+KI  +VD MK++G+APDL TYNTLIS CCRGSLY+EAA
Sbjct: 155 MSTPWNKIMDVVDGMKNAGIAPDLYTYNTLISCCCRGSLYEEAA 198

[Close]

BLAST of Carg26997 vs. NCBI nr
Match: XP_023905166.1 (pentatricopeptide repeat-containing protein At5g02860 [Quercus suber])

HSP 1 Score: 71.2 bits (173), Expect = 6.8e-09
Identity = 31/44 (70.45%), Postives = 37/44 (84.09%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAA 45
           M  PW+KI  +VD MK++G+APDL TYNTLIS CCRGSLY+EAA
Sbjct: 258 MSTPWNKIMDVVDGMKNAGIAPDLYTYNTLISCCCRGSLYEEAA 301

[Close]

BLAST of Carg26997 vs. TrEMBL
Match: tr|A0A0S3SKN9|A0A0S3SKN9_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.07G231300 PE=4 SV=1)

HSP 1 Score: 130.6 bits (327), Expect = 6.2e-27
Identity = 66/90 (73.33%), Postives = 77/90 (85.56%), Query Frame = 0


Query: 222 ASLARRGLWEQSEIVLAEMKNGRCKPNELTYCSLLHAYVNGKEIRRVSAHAEEIYASIIE 281
           A+LAR GLW+QSE VLAEMK+GRCKPNE++Y SLLHAY NGKEI R++A AE+IY+  IE
Sbjct: 24  AALARGGLWQQSEKVLAEMKDGRCKPNEMSYSSLLHAYTNGKEIERMNALAEDIYSGSIE 83

Query: 282 PQAMLLKTLVLVYSKSDLLMETERAFFELR 312
              +LLKTLVLV SKSDLLM+TERAF ELR
Sbjct: 84  THPVLLKTLVLVNSKSDLLMDTERAFLELR 113

[Close]

BLAST of Carg26997 vs. TrEMBL
Match: tr|A0A1U8B749|A0A1U8B749_NELNU (pentatricopeptide repeat-containing protein At5g02860 OS=Nelumbo nucifera OX=4432 GN=LOC104607733 PE=4 SV=1)

HSP 1 Score: 105.1 bits (261), Expect = 2.8e-19
Identity = 51/67 (76.12%), Postives = 58/67 (86.57%), Query Frame = 0


Query: 245 CKPNELTYCSLLHAYVNGKEIRRVSAHAEEIYASIIEPQAMLLKTLVLVYSKSDLLMETE 304
           CKPNE+TYCSLLHAY NG EI R+ A AE+IY+ +IEP A+L+KTLVLV SKSDLLMETE
Sbjct: 567 CKPNEITYCSLLHAYANGNEIERMRALAEDIYSGVIEPHAVLVKTLVLVNSKSDLLMETE 626

Query: 305 RAFFELR 312
           RAF ELR
Sbjct: 627 RAFLELR 633

HSP 2 Score: 62.0 bits (149), Expect = 2.7e-06
Identity = 30/39 (76.92%), Postives = 31/39 (79.49%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSL 40
           MGMPWSKI AIVD MK+ GV PD  TYNTLIS C RGSL
Sbjct: 267 MGMPWSKILAIVDRMKNEGVLPDSYTYNTLISCCRRGSL 305

[Close]

BLAST of Carg26997 vs. TrEMBL
Match: tr|A0A2I0KSA3|A0A2I0KSA3_PUNGR (Uncharacterized protein OS=Punica granatum OX=22663 GN=CRG98_008216 PE=4 SV=1)

HSP 1 Score: 75.1 bits (183), Expect = 3.1e-10
Identity = 35/45 (77.78%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAAK 46
          MGMPW+KI  IVD MKSSGVAPDL TYNT+IS C RGSLY+EAA+
Sbjct: 23 MGMPWNKIVGIVDGMKSSGVAPDLYTYNTIISCCRRGSLYEEAAE 67

[Close]

BLAST of Carg26997 vs. TrEMBL
Match: tr|A0A2P4GKK5|A0A2P4GKK5_QUESU (Pentatricopeptide repeat-containing protein OS=Quercus suber OX=58331 GN=CFP56_79722 PE=4 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 4.5e-09
Identity = 31/44 (70.45%), Postives = 37/44 (84.09%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGSLYKEAA 45
           M  PW+KI  +VD MK++G+APDL TYNTLIS CCRGSLY+EAA
Sbjct: 155 MSTPWNKIMDVVDGMKNAGIAPDLYTYNTLISCCCRGSLYEEAA 198

[Close]

BLAST of Carg26997 vs. TrEMBL
Match: tr|A0A1S3C150|A0A1S3C150_CUCME (pentatricopeptide repeat-containing protein At5g02860 OS=Cucumis melo OX=3656 GN=LOC103495294 PE=4 SV=1)

HSP 1 Score: 69.7 bits (169), Expect = 1.3e-08
Identity = 33/38 (86.84%), Postives = 35/38 (92.11%), Query Frame = 0


Query: 1   MGMPWSKIAAIVDSMKSSGVAPDLCTYNTLISSCCRGS 39
           MGMPWSKI+A+VDSMKSSGV PDL TYNTLISSC RGS
Sbjct: 286 MGMPWSKISALVDSMKSSGVVPDLYTYNTLISSCRRGS 323

The following BLAST results are available for this feature:

BLAST of Carg26997 vs. NCBI nr


Match Name	E-value	Identity	Description
BAT93365.1	9.4e-27	73.33	hypothetical protein VIGAN_07231300 [Vigna angularis var. angularis]	[more]
XP_010271739.1	4.2e-19	76.12	PREDICTED: pentatricopeptide repeat-containing protein At5g02860 [Nelumbo nucife...	[more]
PKI71357.1	4.7e-10	77.78	hypothetical protein CRG98_008216 [Punica granatum]	[more]
POE44543.1	6.8e-09	70.45	pentatricopeptide repeat-containing protein [Quercus suber]	[more]
XP_023905166.1	6.8e-09	70.45	pentatricopeptide repeat-containing protein At5g02860 [Quercus suber]	[more]

BLAST of Carg26997 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of Carg26997 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Carg26997 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0S3SKN9\|A0A0S3SKN9_PHAAN	6.2e-27	73.33	Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.07G...	[more]
tr\|A0A1U8B749\|A0A1U8B749_NELNU	2.8e-19	76.12	pentatricopeptide repeat-containing protein At5g02860 OS=Nelumbo nucifera OX=443...	[more]
tr\|A0A2I0KSA3\|A0A2I0KSA3_PUNGR	3.1e-10	77.78	Uncharacterized protein OS=Punica granatum OX=22663 GN=CRG98_008216 PE=4 SV=1	[more]
tr\|A0A2P4GKK5\|A0A2P4GKK5_QUESU	4.5e-09	70.45	Pentatricopeptide repeat-containing protein OS=Quercus suber OX=58331 GN=CFP56_7...	[more]
tr\|A0A1S3C150\|A0A1S3C150_CUCME	1.3e-08	86.84	pentatricopeptide repeat-containing protein At5g02860 OS=Cucumis melo OX=3656 GN...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0005515	protein binding

Vocabulary: **INTERPRO**
Term	Definition
IPR002885	Pentatricopeptide_repeat
IPR011990	TPR-like_helical_dom_sf

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0005515	protein binding

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Carg26997-RA	Carg26997-RA	mRNA

InterPro

Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	G3DSA:1.25.40.10		coord: 4..118 e-value: 4.4E-32 score: 112.9
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	G3DSA:1.25.40.10		coord: 119..311 e-value: 6.2E-34 score: 119.7
IPR002885	Pentatricopeptide repeat	PFAM	PF13812	PPR_3	coord: 236..261 e-value: 9.6E-4 score: 19.1 coord: 90..151 e-value: 3.3E-19 score: 68.6 coord: 44..78 e-value: 2.6E-6 score: 27.3 coord: 159..216 e-value: 1.7E-7 score: 31.1 coord: 8..34 e-value: 8.5E-5 score: 22.5
IPR002885	Pentatricopeptide repeat	TIGRFAM	TIGR00756	TIGR00756	coord: 69..102 e-value: 1.2E-9 score: 35.8 coord: 140..172 e-value: 7.3E-6 score: 23.8 coord: 104..138 e-value: 4.0E-8 score: 30.9 coord: 25..44 e-value: 0.0016 score: 16.4
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 32..66 score: 7.914
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 248..282 score: 6.588
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 172..206 score: 9.58
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 67..101 score: 12.704
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 213..247 score: 6.04
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 137..171 score: 9.219
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 1..22 score: 5.481
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 102..136 score: 12.518
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 222..311 coord: 3..223
None	No IPR available	PANTHER	PTHR24015:SF308	SUBFAMILY NOT NAMED	coord: 222..311
None	No IPR available	PANTHER	PTHR24015:SF308	SUBFAMILY NOT NAMED	coord: 3..223
None	No IPR available	PROSITE	PS51257	PROKAR_LIPOPROTEIN	coord: 1..34 score: 5.0

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Carg26997	Cla016080	Watermelon (97103) v1	carwmB0179
Carg26997	Csa7G071530	Cucumber (Chinese Long) v2	carcuB0210
Carg26997	ClCG02G006650	Watermelon (Charleston Gray)	carwcgB0181
Carg26997	CSPI07G07000	Wild cucumber (PI 183967)	carcpiB0217
Carg26997	Cucsa.219290	Cucumber (Gy14) v1	carcgyB0228
Carg26997	CmaCh19G005630	Cucurbita maxima (Rimu)	carcmaB0261
Carg26997	CmoCh19G005780	Cucurbita moschata (Rifu)	carcmoB0268
Carg26997	Lsi03G005620	Bottle gourd (USVL1VR-Ls)	carlsiB167
Carg26997	Cp4.1LG15g04550	Cucurbita pepo (Zucchini)	carcpeB0271
Carg26997	Cp4.1LG04g07740	Cucurbita pepo (Zucchini)	carcpeB0272
Carg26997	CsGy7G006550	Cucumber (Gy14) v2	carcgybB0202
Carg26997	MELO3C018506.2	Melon (DHL92) v3.6.1	carmedB0196
Carg26997	CsaV3_7G007980	Cucumber (Chinese Long) v3	carcucB0216

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
Carg26997	Silver-seed gourd	carcarB228
Carg26997	Cucurbita maxima (Rimu)	carcmaB0260
Carg26997	Cucurbita moschata (Rifu)	carcmoB0267
Carg26997	Melon (DHL92) v3.5.1	carmeB0192
Carg26997	Watermelon (97103) v2	carwmbB0193