Cp4.1LG20g05410 (gene) Cucurbita pepo (Zucchini)

Overview
NameCp4.1LG20g05410
Typegene
OrganismCucurbita pepo (Cucurbita pepo (Zucchini))
DescriptionSmall nuclear ribonucleoprotein family protein
LocationCp4.1LG20 : 3090366 .. 3090704 (-)
Genome Viewer
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.
ATGGAACAAGAATCAGGAGGATCCATGGTTCAGGTTGGTAGCAATGTTGAGTCTAATCCAGACAGTTTAGATCGTGTAGGAAAGGTGAGAAAGCTTCTGTTCCGTCGAATGCTCATAGGTATTAAAGATGGAAGGTTTTTCTTGGGCTCCTTTTACTGCATGGACAAGCAAGGAAATATCATCCTTCAAGATGCAGTAGAGTATCGTAGCACTCGACGTAGCTCGCCTTCTCCAATGGAACAACGATGCCTAGGTCTTATTCTTATCCCTAACTCTTGCCGTGTATCTTGTCATGTAGATAGTACCATTGATGAACAATTGGCGCTGTTATCTGTTTAG

mRNA sequence

ATGGAACAAGAATCAGGAGGATCCATGGTTCAGGTTGGTAGCAATGTTGAGTCTAATCCAGACAGTTTAGATCGTGTAGGAAAGGTGAGAAAGCTTCTGTTCCGTCGAATGCTCATAGGTATTAAAGATGGAAGGTTTTTCTTGGGCTCCTTTTACTGCATGGACAAGCAAGGAAATATCATCCTTCAAGATGCAGTAGAGTATCGTAGCACTCGACGTAGCTCGCCTTCTCCAATGGAACAACGATGCCTAGGTCTTATTCTTATCCCTAACTCTTGCCGTGTATCTTGTCATGTAGATAGTACCATTGATGAACAATTGGCGCTGTTATCTGTTTAG

Coding sequence (CDS)

ATGGAACAAGAATCAGGAGGATCCATGGTTCAGGTTGGTAGCAATGTTGAGTCTAATCCAGACAGTTTAGATCGTGTAGGAAAGGTGAGAAAGCTTCTGTTCCGTCGAATGCTCATAGGTATTAAAGATGGAAGGTTTTTCTTGGGCTCCTTTTACTGCATGGACAAGCAAGGAAATATCATCCTTCAAGATGCAGTAGAGTATCGTAGCACTCGACGTAGCTCGCCTTCTCCAATGGAACAACGATGCCTAGGTCTTATTCTTATCCCTAACTCTTGCCGTGTATCTTGTCATGTAGATAGTACCATTGATGAACAATTGGCGCTGTTATCTGTTTAG

Protein sequence

MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNIILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV
Homology
[Close]
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match: A0A0A0LSZ5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G025880 PE=4 SV=1)

HSP 1 Score: 216.1 bits (549), Expect = 2.2e-53
Identity = 106/112 (94.64%), Postives = 110/112 (98.21%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQESGGSMVQ GSNVESNP+SLD +GKVRKLLFRRMLIGIKDGRFFLG+FYC+DKQGNI
Sbjct: 1   MEQESGGSMVQDGSNVESNPESLDHIGKVRKLLFRRMLIGIKDGRFFLGNFYCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV
Sbjct: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 112

[Close]
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match: A0A061GCV7_THECC (Small nuclear ribonucleoprotein family protein isoform 2 OS=Theobroma cacao GN=TCM_029454 PE=4 SV=1)

HSP 1 Score: 173.7 bits (439), Expect = 1.3e-40
Identity = 83/112 (74.11%), Postives = 98/112 (87.50%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+GS+ + N  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 29  MEQEVGESLIQLGSSDDPNSSSTDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCIDKQGNI 88

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQD++EYRSTR SSPSPMEQRCLGLILIP SCR SCHVD +I+EQL+LL V
Sbjct: 89  ILQDSIEYRSTRHSSPSPMEQRCLGLILIPFSCRTSCHVDCSINEQLSLLKV 140

[Close]
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match: A0A0D2RE93_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_011G045800 PE=4 SV=1)

HSP 1 Score: 172.9 bits (437), Expect = 2.1e-40
Identity = 81/112 (72.32%), Postives = 99/112 (88.39%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+G++  SN  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQEVGESLIQLGNSDGSNSSSSDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCLDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQD +EYRSTRRSSPSPMEQRCLGL+LIP+SC+ SCHVD +++EQL+LL V
Sbjct: 61  ILQDTIEYRSTRRSSPSPMEQRCLGLVLIPSSCQNSCHVDCSVEEQLSLLKV 112

[Close]
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match: A0A061GKU0_THECC (Small nuclear ribonucleoprotein family protein isoform 1 OS=Theobroma cacao GN=TCM_029454 PE=4 SV=1)

HSP 1 Score: 172.6 bits (436), Expect = 2.8e-40
Identity = 82/110 (74.55%), Postives = 97/110 (88.18%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+GS+ + N  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQEVGESLIQLGSSDDPNSSSTDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALL 111
           ILQD++EYRSTR SSPSPMEQRCLGLILIP SCR SCHVD +I+EQL+LL
Sbjct: 61  ILQDSIEYRSTRHSSPSPMEQRCLGLILIPFSCRTSCHVDCSINEQLSLL 110

[Close]
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match: A0A0D2ULJ4_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_011G045800 PE=4 SV=1)

HSP 1 Score: 171.8 bits (434), Expect = 4.8e-40
Identity = 80/110 (72.73%), Postives = 98/110 (89.09%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+G++  SN  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQEVGESLIQLGNSDGSNSSSSDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCLDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALL 111
           ILQD +EYRSTRRSSPSPMEQRCLGL+LIP+SC+ SCHVD +++EQL+LL
Sbjct: 61  ILQDTIEYRSTRRSSPSPMEQRCLGLVLIPSSCQNSCHVDCSVEEQLSLL 110

[Close]
BLAST of Cp4.1LG20g05410 vs. TAIR10
Match: AT4G18372.1 (AT4G18372.1 Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 152.5 bits (384), Expect = 1.5e-37
Identity = 74/112 (66.07%), Postives = 90/112 (80.36%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQ +  S   V S  E +    D + ++RKLLFR+ML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQAAERSSTIVASTSEGS--DFDPISRLRKLLFRQMLVGIKDGRFFLGNFHCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQD VEYRS RRSSPSP EQRCLG+ILIP+SCR SCHVD +IDEQL+L+ +
Sbjct: 61  ILQDTVEYRSIRRSSPSPTEQRCLGMILIPSSCRTSCHVDCSIDEQLSLIQL 110

[Close]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match: gi|778656582|ref|XP_011649337.1| (PREDICTED: uncharacterized protein LOC101206200 [Cucumis sativus])

HSP 1 Score: 216.1 bits (549), Expect = 3.2e-53
Identity = 106/112 (94.64%), Postives = 110/112 (98.21%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQESGGSMVQ GSNVESNP+SLD +GKVRKLLFRRMLIGIKDGRFFLG+FYC+DKQGNI
Sbjct: 1   MEQESGGSMVQDGSNVESNPESLDHIGKVRKLLFRRMLIGIKDGRFFLGNFYCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV
Sbjct: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 112

[Close]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match: gi|659068447|ref|XP_008444468.1| (PREDICTED: uncharacterized protein LOC103487784 [Cucumis melo])

HSP 1 Score: 209.9 bits (533), Expect = 2.3e-51
Identity = 104/112 (92.86%), Postives = 108/112 (96.43%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQESGGSMVQ GSN ESN +SLD +GKVRKLLFRRMLIGIKDGRFFLG+FYC+DKQGNI
Sbjct: 1   MEQESGGSMVQDGSNFESNSESLDCIGKVRKLLFRRMLIGIKDGRFFLGNFYCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV
Sbjct: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 112

[Close]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match: gi|590622413|ref|XP_007025043.1| (Small nuclear ribonucleoprotein family protein isoform 2 [Theobroma cacao])

HSP 1 Score: 173.7 bits (439), Expect = 1.8e-40
Identity = 83/112 (74.11%), Postives = 98/112 (87.50%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+GS+ + N  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 29  MEQEVGESLIQLGSSDDPNSSSTDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCIDKQGNI 88

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQD++EYRSTR SSPSPMEQRCLGLILIP SCR SCHVD +I+EQL+LL V
Sbjct: 89  ILQDSIEYRSTRHSSPSPMEQRCLGLILIPFSCRTSCHVDCSINEQLSLLKV 140

[Close]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match: gi|763801914|gb|KJB68852.1| (hypothetical protein B456_011G045800 [Gossypium raimondii])

HSP 1 Score: 172.9 bits (437), Expect = 3.1e-40
Identity = 81/112 (72.32%), Postives = 99/112 (88.39%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+G++  SN  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQEVGESLIQLGNSDGSNSSSSDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCLDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALLSV 113
           ILQD +EYRSTRRSSPSPMEQRCLGL+LIP+SC+ SCHVD +++EQL+LL V
Sbjct: 61  ILQDTIEYRSTRRSSPSPMEQRCLGLVLIPSSCQNSCHVDCSVEEQLSLLKV 112

[Close]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match: gi|590622409|ref|XP_007025042.1| (Small nuclear ribonucleoprotein family protein isoform 1 [Theobroma cacao])

HSP 1 Score: 172.6 bits (436), Expect = 4.0e-40
Identity = 82/110 (74.55%), Postives = 97/110 (88.18%), Query Frame = 1 

Query: 1   MEQESGGSMVQVGSNVESNPDSLDRVGKVRKLLFRRMLIGIKDGRFFLGSFYCMDKQGNI 60
           MEQE G S++Q+GS+ + N  S D V +VRKLLFRRML+GIKDGRFFLG+F+C+DKQGNI
Sbjct: 1   MEQEVGESLIQLGSSDDPNSSSTDPVTRVRKLLFRRMLVGIKDGRFFLGTFHCIDKQGNI 60

Query: 61  ILQDAVEYRSTRRSSPSPMEQRCLGLILIPNSCRVSCHVDSTIDEQLALL 111
           ILQD++EYRSTR SSPSPMEQRCLGLILIP SCR SCHVD +I+EQL+LL
Sbjct: 61  ILQDSIEYRSTRHSSPSPMEQRCLGLILIPFSCRTSCHVDCSINEQLSLL 110

The following BLAST results are available for this feature:
BLAST of Cp4.1LG20g05410 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of Cp4.1LG20g05410 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0LSZ5_CUCSA2.2e-5394.64Uncharacterized protein OS=Cucumis sativus GN=Csa_1G025880 PE=4 SV=1[more]
A0A061GCV7_THECC1.3e-4074.11Small nuclear ribonucleoprotein family protein isoform 2 OS=Theobroma cacao GN=T... [more]
A0A0D2RE93_GOSRA2.1e-4072.32Uncharacterized protein OS=Gossypium raimondii GN=B456_011G045800 PE=4 SV=1[more]
A0A061GKU0_THECC2.8e-4074.55Small nuclear ribonucleoprotein family protein isoform 1 OS=Theobroma cacao GN=T... [more]
A0A0D2ULJ4_GOSRA4.8e-4072.73Uncharacterized protein OS=Gossypium raimondii GN=B456_011G045800 PE=4 SV=1[more]
BLAST of Cp4.1LG20g05410 vs. TAIR10
Match NameE-valueIdentityDescription
AT4G18372.11.5e-3766.07 Small nuclear ribonucleoprotein family protein[more]
BLAST of Cp4.1LG20g05410 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|778656582|ref|XP_011649337.1|3.2e-5394.64PREDICTED: uncharacterized protein LOC101206200 [Cucumis sativus][more]
gi|659068447|ref|XP_008444468.1|2.3e-5192.86PREDICTED: uncharacterized protein LOC103487784 [Cucumis melo][more]
gi|590622413|ref|XP_007025043.1|1.8e-4074.11Small nuclear ribonucleoprotein family protein isoform 2 [Theobroma cacao][more]
gi|763801914|gb|KJB68852.1|3.1e-4072.32hypothetical protein B456_011G045800 [Gossypium raimondii][more]
gi|590622409|ref|XP_007025042.1|4.0e-4074.55Small nuclear ribonucleoprotein family protein isoform 1 [Theobroma cacao][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR010920LSM_dom_sf
IPR001163LSM_dom_euk/arc
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:0030529 intracellular ribonucleoprotein complex
cellular_component GO:0019013 viral nucleocapsid
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 NameUnique NameType
Cp4.1LG20g05410.1Cp4.1LG20g05410.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita pepo
Date Performed: 2017-12-02
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001163LSM domain, eukaryotic/archaea-typePFAMPF01423LSMcoord: 30..89
score: 2.
IPR010920LSM domainunknownSSF50182Sm-like ribonucleoproteinscoord: 26..101
score: 3.02
NoneNo IPR availableGENE3DG3DSA:2.30.30.100coord: 27..101
score: 9.3

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Cp4.1LG20g05410CmaCh13G005240Cucurbita maxima (Rimu)cmacpeB234
Cp4.1LG20g05410CmoCh13G005530Cucurbita moschata (Rifu)cmocpeB201
Cp4.1LG20g05410Cla019570Watermelon (97103) v1cpewmB508
Cp4.1LG20g05410MELO3C002751Melon (DHL92) v3.5.1cpemeB477
Cp4.1LG20g05410ClCG03G006700Watermelon (Charleston Gray)cpewcgB468
Cp4.1LG20g05410Lsi02G009030Bottle gourd (USVL1VR-Ls)cpelsiB417
Cp4.1LG20g05410Bhi08G001673Wax gourdcpewgoB0649
Cp4.1LG20g05410Carg25443Silver-seed gourdcarcpeB0294
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Cp4.1LG20g05410Cucumber (Gy14) v2cgybcpeB813
Cp4.1LG20g05410Melon (DHL92) v3.6.1cpemedB559
Cp4.1LG20g05410Melon (DHL92) v3.6.1cpemedB572
Cp4.1LG20g05410Silver-seed gourdcarcpeB0416
Cp4.1LG20g05410Silver-seed gourdcarcpeB0594
Cp4.1LG20g05410Silver-seed gourdcarcpeB1030
Cp4.1LG20g05410Cucumber (Chinese Long) v3cpecucB0650
Cp4.1LG20g05410Wax gourdcpewgoB0630
Cp4.1LG20g05410Cucurbita pepo (Zucchini)cpecpeB048
Cp4.1LG20g05410Cucurbita pepo (Zucchini)cpecpeB088
Cp4.1LG20g05410Cucurbita pepo (Zucchini)cpecpeB412
Cp4.1LG20g05410Cucumber (Gy14) v1cgycpeB0040
Cp4.1LG20g05410Cucurbita maxima (Rimu)cmacpeB438
Cp4.1LG20g05410Cucurbita maxima (Rimu)cmacpeB675
Cp4.1LG20g05410Cucurbita maxima (Rimu)cmacpeB881
Cp4.1LG20g05410Cucurbita moschata (Rifu)cmocpeB403
Cp4.1LG20g05410Cucurbita moschata (Rifu)cmocpeB628
Cp4.1LG20g05410Cucurbita moschata (Rifu)cmocpeB818
Cp4.1LG20g05410Wild cucumber (PI 183967)cpecpiB527
Cp4.1LG20g05410Cucumber (Chinese Long) v2cpecuB525
Cp4.1LG20g05410Bottle gourd (USVL1VR-Ls)cpelsiB416
Cp4.1LG20g05410Watermelon (Charleston Gray)cpewcgB450
Cp4.1LG20g05410Watermelon (97103) v1cpewmB513
Cp4.1LG20g05410Melon (DHL92) v3.5.1cpemeB485