Cla016253 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla016253
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Ty3-gypsy retrotransposon protein (AHRD V1 ***- E5GCP6_CUCME)
Location	Chr9 : 10729294 .. 10730031 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGGATTCCAAGAAAGTTGTGTCCAAATCTCCTACTGCCAGCAACACCTACACAGAACTCATCACTCGTAGTCACTCAAAGGGGGTCTTGCAGGAGAAGGAACAAGGTTATACCATCACGGAGAACATCTGGAGGCAGTTGACGAAATCCCCTAAAGGCAGGATTGTCATCAAAGAAAATCCTTTGTTTGAAAACTTTGCTCCCGCTTCTAACCAATCCAAGAAAGAATCACACCCTGATGTGATGTCTGTCATGATGGCCAATGTAACAGTAAAGGCAACCATGGCGAAAATGGAAAGGAAAATAAACCTCCTAATGAAAGTTTTTGAGGAGCGAGATCCTGAGATCGCTGCCTTAAGAGATCAGATGCAGGTTTGAGAAACTGCTAAGTCGAGTCAAACTCTCGTTGCCAAGGCGAATGACAAATGGAAAACTTAGTTATAGGAAACTCACTTGCAACAATCCATCTTTGTTGCCTCTTTGTTGGTCCAACAACTGCAGGACATGATCACAAATTCCATTAGTGTTCAGTATGGAAGGTCTTCACAAACTTCTTTCATGTACTCCAAGTCGTACACCAAGAGAATCGACAACCTCCAAATGCATGTTGGGTATCAACCCCAAAAGCTCCAACAGTTCGATGGAAAGGGCAACCCAAAGCAACACATTGTCCACTTTGTTGAAACATGCGAGAACGCAGGAACCAGAGGAGACCTGTTAGTCAAGCAGTTCGTCTGA

mRNA sequence

ATGGATTCCAAGAAAGTTGTGTCCAAATCTCCTACTGCCAGCAACACCTACACAGAACTCATCACTCGTAGTCACTCAAAGGGGGTCTTGCAGGAGAAGGAACAAGGTTATACCATCACGGAGAACATCTGGAGGCAGTTGACGAAATCCCCTAAAGGCAGGATTGTCATCAAAGAAAATCCTTTGTTTGAAAACTTTGCTCCCGCTTCTAACCAATCCAAGAAAGAATCACACCCTGATGTGATGTCTGTCATGATGGCCAATGTAACAGTAAAGGCAACCATGGCGAAAATGGAAAGGAAAATAAACCTCCTAATGAAAGTTTTTGAGGAGCGAGATCCTGAGATCGCTGCCTTAAGAGATCAGATGCAGGACATGATCACAAATTCCATTAGTGTTCAGTATGGAAGGTCTTCACAAACTTCTTTCATGTACTCCAAGTCGTACACCAAGAGAATCGACAACCTCCAAATGCATGTTGGGTATCAACCCCAAAAGCTCCAACAGTTCGATGGAAAGGGCAACCCAAAGCAACACATTGTCCACTTTGTTGAAACATGCGAGAACGCAGGAACCAGAGGAGACCTGTTAGTCAAGCAGTTCGTCTGA

Coding sequence (CDS)

ATGGATTCCAAGAAAGTTGTGTCCAAATCTCCTACTGCCAGCAACACCTACACAGAACTCATCACTCGTAGTCACTCAAAGGGGGTCTTGCAGGAGAAGGAACAAGGTTATACCATCACGGAGAACATCTGGAGGCAGTTGACGAAATCCCCTAAAGGCAGGATTGTCATCAAAGAAAATCCTTTGTTTGAAAACTTTGCTCCCGCTTCTAACCAATCCAAGAAAGAATCACACCCTGATGTGATGTCTGTCATGATGGCCAATGTAACAGTAAAGGCAACCATGGCGAAAATGGAAAGGAAAATAAACCTCCTAATGAAAGTTTTTGAGGAGCGAGATCCTGAGATCGCTGCCTTAAGAGATCAGATGCAGGACATGATCACAAATTCCATTAGTGTTCAGTATGGAAGGTCTTCACAAACTTCTTTCATGTACTCCAAGTCGTACACCAAGAGAATCGACAACCTCCAAATGCATGTTGGGTATCAACCCCAAAAGCTCCAACAGTTCGATGGAAAGGGCAACCCAAAGCAACACATTGTCCACTTTGTTGAAACATGCGAGAACGCAGGAACCAGAGGAGACCTGTTAGTCAAGCAGTTCGTCTGA

Protein sequence

MDSKKVVSKSPTASNTYTELITRSHSKGVLQEKEQGYTITENIWRQLTKSPKGRIVIKENPLFENFAPASNQSKKESHPDVMSVMMANVTVKATMAKMERKINLLMKVFEERDPEIAALRDQMQDMITNSISVQYGRSSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRGDLLVKQFV

Homology

[Close]

BLAST of Cla016253 vs. TrEMBL
Match: E5GB67_CUCME (Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 217.6 bits (553), Expect = 1.4e-53
Identity = 113/185 (61.08%), Postives = 135/185 (72.97%), Query Frame = 1


Query: 30  LQEKEQGYTITENIWRQLTKSPKGRIVIKENPLFENFAPASNQSKKESHPDVMSVMMANV 89
           +QE+EQG+ + +    QL +S KG I+I++NPLF N  P SN S KESH +V+SVMM +V
Sbjct: 1   MQEQEQGFVLKKKSLEQLIESLKGGIIIRDNPLFNNSTPTSNLSDKESHLEVVSVMMIDV 60

Query: 90  TVKATMAKMERKINLLMKVFEERDPEIAALRDQMQDM------------ITNSISVQYGR 149
           T +ATMA+ME+KIN LMKV EERD EIAAL+DQM+               T+     YG 
Sbjct: 61  TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMKACESAESSQTSVVKTTDKGKNVYGG 120

Query: 150 SSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRGDLL 203
             QTSFMYSK YTKRIDNL+M +GYQP K QQFDGKGNPKQHI HFVETCENAG+RGD L
Sbjct: 121 PPQTSFMYSKPYTKRIDNLRMPLGYQPPKFQQFDGKGNPKQHIAHFVETCENAGSRGDQL 180

[Close]

BLAST of Cla016253 vs. TrEMBL
Match: A5C4T7_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020798 PE=4 SV=1)

HSP 1 Score: 141.7 bits (356), Expect = 9.5e-31
Identity = 77/138 (55.80%), Postives = 94/138 (68.12%), Query Frame = 1


Query: 70  SNQSKKESHPD--VMSVMMANVT-VKATMAKMERKINLLMKVFEERDPEIAALRDQM--Q 129
           SN S   + P    MSVM    T ++  +A++ R I  L K  EE+D +IA+L +++  Q
Sbjct: 84  SNHSDSFTSPFSMTMSVMTTGTTSIEEQLAEIARAIAKLTKTVEEKDMQIASLINKVETQ 143

Query: 130 DMITNSISVQYGRSSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFV 189
           DMITN+I  QYG  SQ++ MYSK YTKRIDNL M +GYQP K Q FDGK NPKQH+ HFV
Sbjct: 144 DMITNTIKAQYGGPSQSTLMYSKPYTKRIDNLHMPMGYQPPKFQSFDGKDNPKQHVAHFV 203

Query: 190 ETCENAGTRGDLLVKQFV 203
           ETC NAGT  DLLV QFV
Sbjct: 204 ETCNNAGTDSDLLVNQFV 221

[Close]

BLAST of Cla016253 vs. TrEMBL
Match: E5GCP6_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 141.0 bits (354), Expect = 1.6e-30
Identity = 94/248 (37.90%), Postives = 124/248 (50.00%), Query Frame = 1


Query: 1   MDSKKVVSKSPTASNTYTELITRSHSKGVLQ--------------------EKEQGYTIT 60
           M + K  SKS  AS++Y  L+T+SH K  +Q                      + G  I 
Sbjct: 1   MATNKAASKSSVASDSYIGLVTQSHLKRSMQEQEQEQGFVLKKKSLEQLIESPKGGIIIR 60

Query: 61  EN-IWRQLTKSPK-------------------GRIVIKENPLFENFAPASNQSKKESHPD 120
           +N ++   T +                         + E     NF     + +      
Sbjct: 61  DNPLFNNSTPASNLSDKASHLEVVSVMMVDVTAEATVTEMERKINFLMKVIEERDHEIAA 120

Query: 121 VMSVMMANVTVKATMAKMERKINLLMKVFEERDPE-----IAALR-DQMQDMITNSISVQ 180
           +   M A  T +++   + +  +    V +E  P+     +A+L   Q+QDMI NSI  Q
Sbjct: 121 LKDQMKACETGESSQTPVVKATDKGKNVVQENQPQQQSVSVASLSVQQLQDMIANSIRAQ 180

Query: 181 YGRSSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRG 203
           YG   QTSFMYSKSYTKRIDNL+M +GYQP K QQFDG+GNPKQHI HFVETCENAG+RG
Sbjct: 181 YGGPPQTSFMYSKSYTKRIDNLRMPLGYQPPKFQQFDGRGNPKQHIAHFVETCENAGSRG 240

[Close]

BLAST of Cla016253 vs. TrEMBL
Match: E5GCE3_CUCME (Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 137.1 bits (344), Expect = 2.3e-29
Identity = 69/128 (53.91%), Postives = 91/128 (71.09%), Query Frame = 1


Query: 1   MDSKKVVSKSPTASNTYTELITRSHSKGVLQEKEQGYTITENIWRQLTKSPKGRIVIKEN 60
           M  +KV SK+   +++YT L+T+SHSK  +QE+EQ   + +  W QL +SPKG I I+EN
Sbjct: 1   MAPRKVASKATVTNDSYTGLVTQSHSKRSIQEQEQSSVLKKKSWEQLIESPKGGINIREN 60

Query: 61  PLFENFAPASNQSKKESHPDVMSVMMANVTVKATMAKMERKINLLMKVFEERDPEIAALR 120
           PLF N  PASN S KESH +V+SV+MA VT + TM +MERKIN LMK  ++RD EI AL 
Sbjct: 61  PLFNNSTPASNLSDKESHLEVVSVIMAAVTAETTMVEMERKINFLMKAVKDRDHEITALE 120

Query: 121 DQMQDMIT 129
           DQM+  +T
Sbjct: 121 DQMKACVT 128

[Close]

BLAST of Cla016253 vs. TrEMBL
Match: E5GCM2_CUCME (Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 125.6 bits (314), Expect = 7.1e-26
Identity = 65/115 (56.52%), Postives = 83/115 (72.17%), Query Frame = 1


Query: 5   KVVSKSPTASNTYTELITRSHSKGVLQEKEQGYTITENIWRQLTKSPKGRIVIKENPLFE 64
           KV SK+   ++TYT LI +SHSK   Q++EQ   + +  W QL +SPK  I+IKENPLFE
Sbjct: 5   KVASKAIIINDTYTRLIVQSHSKRSTQKQEQNSVLAKKSWEQLMESPKCGIIIKENPLFE 64

Query: 65  NFAPASNQSKKESHPDVMSVMMANVTVKATMAKMERKINLLMKVFEERDPEIAAL 120
           +  PASN S+KESH +V+S+MMA+VTV+A M +ME KIN LMKV EERD  I  L
Sbjct: 65  DSTPASNLSEKESHLEVVSIMMADVTVEAVMVEMEMKINFLMKVVEERDYGITVL 119

[Close]

BLAST of Cla016253 vs. NCBI nr
Match: gi|307135838|gb|ADN33709.1| (retrotransposon gag protein [Cucumis melo subsp. melo])

HSP 1 Score: 217.6 bits (553), Expect = 2.0e-53
Identity = 113/185 (61.08%), Postives = 135/185 (72.97%), Query Frame = 1


Query: 30  LQEKEQGYTITENIWRQLTKSPKGRIVIKENPLFENFAPASNQSKKESHPDVMSVMMANV 89
           +QE+EQG+ + +    QL +S KG I+I++NPLF N  P SN S KESH +V+SVMM +V
Sbjct: 1   MQEQEQGFVLKKKSLEQLIESLKGGIIIRDNPLFNNSTPTSNLSDKESHLEVVSVMMIDV 60

Query: 90  TVKATMAKMERKINLLMKVFEERDPEIAALRDQMQDM------------ITNSISVQYGR 149
           T +ATMA+ME+KIN LMKV EERD EIAAL+DQM+               T+     YG 
Sbjct: 61  TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMKACESAESSQTSVVKTTDKGKNVYGG 120

Query: 150 SSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRGDLL 203
             QTSFMYSK YTKRIDNL+M +GYQP K QQFDGKGNPKQHI HFVETCENAG+RGD L
Sbjct: 121 PPQTSFMYSKPYTKRIDNLRMPLGYQPPKFQQFDGKGNPKQHIAHFVETCENAGSRGDQL 180

[Close]

BLAST of Cla016253 vs. NCBI nr
Match: gi|659118742|ref|XP_008459280.1| (PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo])

HSP 1 Score: 206.5 bits (524), Expect = 4.5e-50
Identity = 106/176 (60.23%), Postives = 130/176 (73.86%), Query Frame = 1


Query: 41  ENIWRQLTKSPKGRIVIKENPLFENFAPASNQSKKESHPDVMSVMMANVTVKATMAKMER 100
           ++I +QL  SPK  I IKENPL++NF  A ++ KKE+HPDVMSVMM ++T +A M +MER
Sbjct: 2   QSILKQLMLSPKAGIFIKENPLYDNFDSALSKLKKEAHPDVMSVMMVDITAEAAMTEMER 61

Query: 101 KINLLMKVFEERDPEIAALRDQMQ--------------DMITNSISVQYGRSSQTSFMYS 160
           KINL+MKV +E+D +I ALR+QMQ              DMIT+SI  QYG   QTSFMYS
Sbjct: 62  KINLVMKVVKEQDHKITALREQMQIHETTKSSQTPQLQDMITSSIRAQYGGPPQTSFMYS 121

Query: 161 KSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRGDLLVKQFV 203
           K YTKRI++L+M VGYQP K QQFD KGN  QH+ HFVETC+N G+RGD LVKQFV
Sbjct: 122 KPYTKRINDLRMPVGYQPLKFQQFDRKGNLNQHVAHFVETCKNTGSRGDQLVKQFV 177

[Close]

BLAST of Cla016253 vs. NCBI nr
Match: gi|147858200|emb|CAN81822.1| (hypothetical protein VITISV_020798 [Vitis vinifera])

HSP 1 Score: 141.7 bits (356), Expect = 1.4e-30
Identity = 77/138 (55.80%), Postives = 94/138 (68.12%), Query Frame = 1


Query: 70  SNQSKKESHPD--VMSVMMANVT-VKATMAKMERKINLLMKVFEERDPEIAALRDQM--Q 129
           SN S   + P    MSVM    T ++  +A++ R I  L K  EE+D +IA+L +++  Q
Sbjct: 84  SNHSDSFTSPFSMTMSVMTTGTTSIEEQLAEIARAIAKLTKTVEEKDMQIASLINKVETQ 143

Query: 130 DMITNSISVQYGRSSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFV 189
           DMITN+I  QYG  SQ++ MYSK YTKRIDNL M +GYQP K Q FDGK NPKQH+ HFV
Sbjct: 144 DMITNTIKAQYGGPSQSTLMYSKPYTKRIDNLHMPMGYQPPKFQSFDGKDNPKQHVAHFV 203

Query: 190 ETCENAGTRGDLLVKQFV 203
           ETC NAGT  DLLV QFV
Sbjct: 204 ETCNNAGTDSDLLVNQFV 221

[Close]

BLAST of Cla016253 vs. NCBI nr
Match: gi|307136441|gb|ADN34247.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 141.0 bits (354), Expect = 2.3e-30
Identity = 94/248 (37.90%), Postives = 124/248 (50.00%), Query Frame = 1


Query: 1   MDSKKVVSKSPTASNTYTELITRSHSKGVLQ--------------------EKEQGYTIT 60
           M + K  SKS  AS++Y  L+T+SH K  +Q                      + G  I 
Sbjct: 1   MATNKAASKSSVASDSYIGLVTQSHLKRSMQEQEQEQGFVLKKKSLEQLIESPKGGIIIR 60

Query: 61  EN-IWRQLTKSPK-------------------GRIVIKENPLFENFAPASNQSKKESHPD 120
           +N ++   T +                         + E     NF     + +      
Sbjct: 61  DNPLFNNSTPASNLSDKASHLEVVSVMMVDVTAEATVTEMERKINFLMKVIEERDHEIAA 120

Query: 121 VMSVMMANVTVKATMAKMERKINLLMKVFEERDPE-----IAALR-DQMQDMITNSISVQ 180
           +   M A  T +++   + +  +    V +E  P+     +A+L   Q+QDMI NSI  Q
Sbjct: 121 LKDQMKACETGESSQTPVVKATDKGKNVVQENQPQQQSVSVASLSVQQLQDMIANSIRAQ 180

Query: 181 YGRSSQTSFMYSKSYTKRIDNLQMHVGYQPQKLQQFDGKGNPKQHIVHFVETCENAGTRG 203
           YG   QTSFMYSKSYTKRIDNL+M +GYQP K QQFDG+GNPKQHI HFVETCENAG+RG
Sbjct: 181 YGGPPQTSFMYSKSYTKRIDNLRMPLGYQPPKFQQFDGRGNPKQHIAHFVETCENAGSRG 240

[Close]

BLAST of Cla016253 vs. NCBI nr
Match: gi|307136319|gb|ADN34142.1| (hypothetical protein [Cucumis melo subsp. melo])

HSP 1 Score: 137.1 bits (344), Expect = 3.4e-29
Identity = 69/128 (53.91%), Postives = 91/128 (71.09%), Query Frame = 1


Query: 1   MDSKKVVSKSPTASNTYTELITRSHSKGVLQEKEQGYTITENIWRQLTKSPKGRIVIKEN 60
           M  +KV SK+   +++YT L+T+SHSK  +QE+EQ   + +  W QL +SPKG I I+EN
Sbjct: 1   MAPRKVASKATVTNDSYTGLVTQSHSKRSIQEQEQSSVLKKKSWEQLIESPKGGINIREN 60

Query: 61  PLFENFAPASNQSKKESHPDVMSVMMANVTVKATMAKMERKINLLMKVFEERDPEIAALR 120
           PLF N  PASN S KESH +V+SV+MA VT + TM +MERKIN LMK  ++RD EI AL 
Sbjct: 61  PLFNNSTPASNLSDKESHLEVVSVIMAAVTAETTMVEMERKINFLMKAVKDRDHEITALE 120

Query: 121 DQMQDMIT 129
           DQM+  +T
Sbjct: 121 DQMKACVT 128

The following BLAST results are available for this feature:

BLAST of Cla016253 vs. TrEMBL


Match Name	E-value	Identity	Description
E5GB67_CUCME	1.4e-53	61.08	Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
A5C4T7_VITVI	9.5e-31	55.80	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020798 PE=4 SV=1	[more]
E5GCP6_CUCME	1.6e-30	37.90	Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
E5GCE3_CUCME	2.3e-29	53.91	Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
E5GCM2_CUCME	7.1e-26	56.52	Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]

BLAST of Cla016253 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|307135838\|gb\|ADN33709.1\|	2.0e-53	61.08	retrotransposon gag protein [Cucumis melo subsp. melo]	[more]
gi\|659118742\|ref\|XP_008459280.1\|	4.5e-50	60.23	PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo]	[more]
gi\|147858200\|emb\|CAN81822.1\|	1.4e-30	55.80	hypothetical protein VITISV_020798 [Vitis vinifera]	[more]
gi\|307136441\|gb\|ADN34247.1\|	2.3e-30	37.90	ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo]	[more]
gi\|307136319\|gb\|ADN34142.1\|	3.4e-29	53.91	hypothetical protein [Cucumis melo subsp. melo]	[more]

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:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Cla016253	Cla016253.1	mRNA

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla016253	Cucumber (Gy14) v2	cgybwmB170
Cla016253	Melon (DHL92) v3.6.1	medwmB340
Cla016253	Silver-seed gourd	carwmB0076
Cla016253	Silver-seed gourd	carwmB0776
Cla016253	Cucumber (Chinese Long) v3	cucwmB192
Cla016253	Watermelon (97103) v2	wmwmbB041
Cla016253	Wax gourd	wgowmB241
Cla016253	Cucumber (Gy14) v1	cgywmB561
Cla016253	Cucurbita maxima (Rimu)	cmawmB471
Cla016253	Cucurbita maxima (Rimu)	cmawmB547
Cla016253	Cucurbita moschata (Rifu)	cmowmB464
Cla016253	Cucurbita moschata (Rifu)	cmowmB537
Cla016253	Wild cucumber (PI 183967)	cpiwmB183
Cla016253	Watermelon (Charleston Gray)	wcgwmB007
Cla016253	Cucumber (Chinese Long) v2	cuwmB180
Cla016253	Cucurbita pepo (Zucchini)	cpewmB235
Cla016253	Cucurbita pepo (Zucchini)	cpewmB684
Cla016253	Bottle gourd (USVL1VR-Ls)	lsiwmB001