Csa3G874410 (gene) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Csa3G874410
Type	gene
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	LYR family of Fe/S cluster biogenesis protein; contains IPR008011 (Complex 1 LYR protein)
Location	Chr3 : 36617577 .. 36617908 (-)

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.

ATGGTTTTCTCCCATGATTTACGTGAATTTATTCTTCGAGCAAGAGTGTTGAAACTGTATAGACAGGGTTTAAGAACAGCTCGGAAAGCGCCTGTTGATGGTCGAGGTAAAGCTGTGTTTATTAATGGGATTTTGTAATGACTTTGTGTTGTGATTATTGAAATTTCATCTAATTGGATTAGATGGTAACAGATGAATTGAGGCATATGATGAGAGAAGAAATGGAGAAGAACAGAAAGTGTAATGATAGACAGAAAATAAGATTTTTGTTGAGCGAAGGAATAGAGCGATTGAAGCGTCTAGATGAGATGTTGGATATGCAAGGCCATTAG

mRNA sequence

ATGGTTTTCTCCCATGATTTACGTGAATTTATTCTTCGAGCAAGAGTGTTGAAACTGTATAGACAGGATGAATTGAGGCATATGATGAGAGAAGAAATGGAGAAGAACAGAAAGTGTAATGATAGACAGAAAATAAGATTTTTGTTGAGCGAAGGAATAGAGCGATTGAAGCGTCTAGATGAGATGTTGGATATGCAAGGCCATTAG

Coding sequence (CDS)

ATGGTTTTCTCCCATGATTTACGTGAATTTATTCTTCGAGCAAGAGTGTTGAAACTGTATAGACAGGATGAATTGAGGCATATGATGAGAGAAGAAATGGAGAAGAACAGAAAGTGTAATGATAGACAGAAAATAAGATTTTTGTTGAGCGAAGGAATAGAGCGATTGAAGCGTCTAGATGAGATGTTGGATATGCAAGGCCATTAG

Protein sequence

MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLDEMLDMQGH*

Homology

[Close]

BLAST of Csa3G874410 vs. TrEMBL
Match: A0A0A0LGK2_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G874410 PE=3 SV=1)

HSP 1 Score: 139.0 bits (349), Expect = 2.1e-30
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD 60
          MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD
Sbjct: 1  MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD 60

Query: 61 EMLDMQGH 69
          EMLDMQGH
Sbjct: 61 EMLDMQGH 68

[Close]

BLAST of Csa3G874410 vs. TrEMBL
Match: A0A151RQG9_CAJCA (Uncharacterized protein OS=Cajanus cajan GN=KK1_033710 PE=3 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 2.4e-18
Identity = 49/76 (64.47%), Postives = 59/76 (77.63%), Query Frame = 1


Query: 6  DLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRFLLSEG 65
          DL++F+LRARVL+LYRQ             DELR  +REEME NR CND+Q+IR+L+SEG
Sbjct: 2  DLQDFLLRARVLRLYRQALRVAGRAPSSARDELRQTIREEMENNRNCNDKQRIRYLISEG 61

Query: 66 IERLKRLDEMLDMQGH 69
          +ERLKRLDEMLDMQGH
Sbjct: 62 LERLKRLDEMLDMQGH 77

[Close]

BLAST of Csa3G874410 vs. TrEMBL
Match: A9P9V6_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0014s17970g PE=2 SV=1)

HSP 1 Score: 97.1 bits (240), Expect = 9.2e-18
Identity = 50/81 (61.73%), Postives = 60/81 (74.07%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQD-------------ELRHMMREEMEKNRKCNDRQKIRF 60
          MV S  L++FILRARVLKLYRQ              +L+  +R+EME NR CND+Q+IRF
Sbjct: 1  MVLSFGLQDFILRARVLKLYRQALRTTRRAPGDARADLKQTIRQEMENNRHCNDKQRIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
          L+SEG+ERLKRLDEMLDMQGH
Sbjct: 61 LISEGLERLKRLDEMLDMQGH 81

[Close]

BLAST of Csa3G874410 vs. TrEMBL
Match: M5XJM7_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa024578mg PE=3 SV=1)

HSP 1 Score: 97.1 bits (240), Expect = 9.2e-18
Identity = 50/81 (61.73%), Postives = 59/81 (72.84%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRF 60
          M  + DL++F+LRARVLKLYRQ              ELR  +R+E+E NR CNDRQ+IRF
Sbjct: 1  MALALDLQDFLLRARVLKLYRQALRITRRSPVDARGELRSTIRQELENNRHCNDRQRIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
           LSEG+ERLKRLDEMLDMQGH
Sbjct: 61 FLSEGLERLKRLDEMLDMQGH 81

[Close]

BLAST of Csa3G874410 vs. TrEMBL
Match: W9RMC8_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_014312 PE=3 SV=1)

HSP 1 Score: 95.1 bits (235), Expect = 3.5e-17
Identity = 50/81 (61.73%), Postives = 57/81 (70.37%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQD-------------ELRHMMREEMEKNRKCNDRQKIRF 60
          M  S DL++FILRARVLKLYRQ              ELR  +R+EME NR CND+QKIRF
Sbjct: 1  MALSFDLQDFILRARVLKLYRQALRTTRRAPVHARAELRQTIRQEMENNRNCNDKQKIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
           +SEG+ERLK L EMLDMQGH
Sbjct: 61 FISEGLERLKDLGEMLDMQGH 81

[Close]

BLAST of Csa3G874410 vs. TAIR10
Match: AT1G76065.1 (AT1G76065.1 LYR family of Fe/S cluster biogenesis protein)

HSP 1 Score: 94.4 bits (233), Expect = 3.0e-20
Identity = 48/76 (63.16%), Postives = 55/76 (72.37%), Query Frame = 1


Query: 6  DLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRFLLSEG 65
          DL+ FILRARVLKLYRQ              EL+  +R+EMEKNR CND+QKIR+L+SEG
Sbjct: 5  DLQSFILRARVLKLYRQALKIAHRAPVHVRGELKQTVRQEMEKNRDCNDKQKIRYLISEG 64

Query: 66 IERLKRLDEMLDMQGH 69
          +ER+K LDEMLDMQGH
Sbjct: 65 LERIKGLDEMLDMQGH 80

[Close]

BLAST of Csa3G874410 vs. NCBI nr
Match: gi|700204931|gb|KGN60064.1| (hypothetical protein Csa_3G874410 [Cucumis sativus])

HSP 1 Score: 139.0 bits (349), Expect = 3.0e-30
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD 60
          MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD
Sbjct: 1  MVFSHDLREFILRARVLKLYRQDELRHMMREEMEKNRKCNDRQKIRFLLSEGIERLKRLD 60

Query: 61 EMLDMQGH 69
          EMLDMQGH
Sbjct: 61 EMLDMQGH 68

[Close]

BLAST of Csa3G874410 vs. NCBI nr
Match: gi|449437174|ref|XP_004136367.1| (PREDICTED: LYR motif-containing protein 2 [Cucumis sativus])

HSP 1 Score: 129.8 bits (325), Expect = 1.8e-27
Identity = 68/81 (83.95%), Postives = 68/81 (83.95%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRF 60
          MVFSHDLREFILRARVLKLYRQ             DELRHMMREEMEKNRKCNDRQKIRF
Sbjct: 1  MVFSHDLREFILRARVLKLYRQGLRTARKAPVDGRDELRHMMREEMEKNRKCNDRQKIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
          LLSEGIERLKRLDEMLDMQGH
Sbjct: 61 LLSEGIERLKRLDEMLDMQGH 81

[Close]

BLAST of Csa3G874410 vs. NCBI nr
Match: gi|659132917|ref|XP_008466455.1| (PREDICTED: uncharacterized protein LOC103503854 [Cucumis melo])

HSP 1 Score: 128.3 bits (321), Expect = 5.3e-27
Identity = 67/81 (82.72%), Postives = 68/81 (83.95%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRF 60
          MVFSHDLREFILRARVLKLYRQ             DELRHMMREEMEKNRKCNDRQKIRF
Sbjct: 1  MVFSHDLREFILRARVLKLYRQGLRIARKAPVDGRDELRHMMREEMEKNRKCNDRQKIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
          LLSEGIERLK+LDEMLDMQGH
Sbjct: 61 LLSEGIERLKQLDEMLDMQGH 81

[Close]

BLAST of Csa3G874410 vs. NCBI nr
Match: gi|1012333396|gb|KYP44791.1| (hypothetical protein KK1_033710 [Cajanus cajan])

HSP 1 Score: 99.0 bits (245), Expect = 3.5e-18
Identity = 49/76 (64.47%), Postives = 59/76 (77.63%), Query Frame = 1


Query: 6  DLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRFLLSEG 65
          DL++F+LRARVL+LYRQ             DELR  +REEME NR CND+Q+IR+L+SEG
Sbjct: 2  DLQDFLLRARVLRLYRQALRVAGRAPSSARDELRQTIREEMENNRNCNDKQRIRYLISEG 61

Query: 66 IERLKRLDEMLDMQGH 69
          +ERLKRLDEMLDMQGH
Sbjct: 62 LERLKRLDEMLDMQGH 77

[Close]

BLAST of Csa3G874410 vs. NCBI nr
Match: gi|645228886|ref|XP_008221204.1| (PREDICTED: uncharacterized protein LOC103321195 [Prunus mume])

HSP 1 Score: 97.1 bits (240), Expect = 1.3e-17
Identity = 50/81 (61.73%), Postives = 59/81 (72.84%), Query Frame = 1


Query: 1  MVFSHDLREFILRARVLKLYRQ-------------DELRHMMREEMEKNRKCNDRQKIRF 60
          M  + DL++F+LRARVLKLYRQ              ELR  +R+E+E NR CNDRQ+IRF
Sbjct: 1  MALALDLQDFLLRARVLKLYRQALRITRRAPVDARGELRSTIRQELENNRHCNDRQRIRF 60

Query: 61 LLSEGIERLKRLDEMLDMQGH 69
           LSEG+ERLKRLDEMLDMQGH
Sbjct: 61 FLSEGLERLKRLDEMLDMQGH 81

The following BLAST results are available for this feature:

BLAST of Csa3G874410 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LGK2_CUCSA	2.1e-30	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G874410 PE=3 SV=1	[more]
A0A151RQG9_CAJCA	2.4e-18	64.47	Uncharacterized protein OS=Cajanus cajan GN=KK1_033710 PE=3 SV=1	[more]
A9P9V6_POPTR	9.2e-18	61.73	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0014s17970g PE=2 SV=1	[more]
M5XJM7_PRUPE	9.2e-18	61.73	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa024578mg PE=3 SV=1	[more]
W9RMC8_9ROSA	3.5e-17	61.73	Uncharacterized protein OS=Morus notabilis GN=L484_014312 PE=3 SV=1	[more]

BLAST of Csa3G874410 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G76065.1	3.0e-20	63.16	LYR family of Fe/S cluster biogenesis protein	[more]

BLAST of Csa3G874410 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700204931\|gb\|KGN60064.1\|	3.0e-30	100.00	hypothetical protein Csa_3G874410 [Cucumis sativus]	[more]
gi\|449437174\|ref\|XP_004136367.1\|	1.8e-27	83.95	PREDICTED: LYR motif-containing protein 2 [Cucumis sativus]	[more]
gi\|659132917\|ref\|XP_008466455.1\|	5.3e-27	82.72	PREDICTED: uncharacterized protein LOC103503854 [Cucumis melo]	[more]
gi\|1012333396\|gb\|KYP44791.1\|	3.5e-18	64.47	hypothetical protein KK1_033710 [Cajanus cajan]	[more]
gi\|645228886\|ref\|XP_008221204.1\|	1.3e-17	61.73	PREDICTED: uncharacterized protein LOC103321195 [Prunus mume]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR008011	Complex1_LYR
IPR026868	Lyrm2

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

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
CU102881	cucumber EST collection version 3.0	transcribed_cluster
CU111299	cucumber EST collection version 3.0	transcribed_cluster
CU153208	cucumber EST collection version 3.0	transcribed_cluster
CU173387	cucumber EST collection version 3.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
Csa3G874410.1	Csa3G874410.1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
CU102881	CU102881	transcribed_cluster
CU173387	CU173387	transcribed_cluster
CU111299	CU111299	transcribed_cluster
CU153208	CU153208	transcribed_cluster

InterPro

Analysis Name: InterPro Annotations of cucumber (Chinese Long)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008011	Complex 1 LYR protein	PFAM	PF05347	Complex1_LYR	coord: 22..57 score: 9.
IPR026868	LYR motif-containing protein 2	PANTHER	PTHR13675	FAMILY NOT NAMED	coord: 1..68 score: 1.6
None	No IPR available	PANTHER	PTHR13675:SF0	LYR MOTIF-CONTAINING PROTEIN 2	coord: 1..68 score: 1.6

Synteny

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


Gene	Orthologue	Organism	Block
Csa3G874410	Cla007422	Watermelon (97103) v1	cuwmB250
Csa3G874410	MELO3C003728	Melon (DHL92) v3.5.1	cumeB222
Csa3G874410	ClCG05G015420	Watermelon (Charleston Gray)	cuwcgB236
Csa3G874410	Lsi04G017780	Bottle gourd (USVL1VR-Ls)	culsiB192
Csa3G874410	MELO3C003728.2	Melon (DHL92) v3.6.1	cumedB208
Csa3G874410	Cla97C05G096470	Watermelon (97103) v2	cuwmbB221
Csa3G874410	CSPI03G43670	Wild cucumber (PI 183967)	cpicuB120
Csa3G874410	Cucsa.343250	Cucumber (Gy14) v1	cgycuB478
Csa3G874410	CmaCh01G019910	Cucurbita maxima (Rimu)	cmacuB444
Csa3G874410	CmaCh09G000860	Cucurbita maxima (Rimu)	cmacuB017
Csa3G874410	CmoCh09G000840	Cucurbita moschata (Rifu)	cmocuB008
Csa3G874410	Cp4.1LG06g00370	Cucurbita pepo (Zucchini)	cpecuB779
Csa3G874410	CsGy3G041190	Cucumber (Gy14) v2	cgybcuB110
Csa3G874410	Carg17217	Silver-seed gourd	carcuB0961

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Csa3G874410	Cucurbita pepo (Zucchini)	cpecuB556
Csa3G874410	Silver-seed gourd	carcuB0111
Csa3G874410	Cucurbita moschata (Rifu)	cmocuB431