Lsi07G010630 (gene) Bottle gourd (USVL1VR-Ls)

Overview
NameLsi07G010630
Typegene
OrganismLagenaria siceraria (Bottle gourd (USVL1VR-Ls))
DescriptionPre-mRNA branch site p14-like protein
Locationchr07 : 16002404 .. 16003142 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
CAAGAATTCTGCGTGGCTTAAGAATTGCAGCTCGTTTGGGTTTGTCACTCTCAAAGGAAACTGAGACTGCGATGCGTAATCTTTCTCCTTCCATCACAAGATTGGCTAAGGTAATCGTGAGGAAGTTGAACAGTACTAATCTCCTTCCTATGCTTTGTTGTTAAAATATCTGCTATTCTGCCCTATCTGGTGTTTTCTTCTCCTCCTTTCCCCCTTTTCCTTTTGTACACTTCAGTTATATGTTGTAATAGGAAGTCTTTTCTCTAGTATATGCTCTTAAAAGAAAATACTTTATGAGGTTTGACACTGTTCTATTTGGCTATCCTAGTTGATATAACTTAGGCCCATTTGATAACCATTTTGTTTTTGAAAATTATACTTGTTTTGGCATAAAACATCCTTTCGCACTTTCTTTTCTCATAAAAGCCTCATAAGAAACCTTCCTCCATGGCCATAGCCCTTCCTTGCAAGGGAAACACGAGGCTACCGCCGAAGGTCAACCAAGTCTTGTATGTACAAAATTTGTCATTTAACATTACCAGAAAAAGACATACAAAATTTTCGGCAAGTATGGGGCAATTCGGCATATTCGAACAAGGATACTAGGGGTACTGGCTTTGTTGTTTACAAGGATATCATTGATGCTAAGACGGTGGTGGATCACCTCTCCAAGTTCAACGTTCCTAATCGATATTTGATCGTGTTGTACTACCAGCAGGGCCAAGATGAGCAAAATGTT

mRNA sequence

CAAGAATTCTGCGTGGCTTAAGAATTGCAGCTCGTTTGGGTTTGTCACTCTCAAAGGAAACTGAGACTGCGATGCGTAATCTTTCTCCTTCCATCACAAGATTGGCTAAGGTAATCGTGAGGAAGTTGAACAAAAAAGACATACAAAATTTTCGGCAAGTATGGGGCAATTCGGCATATTCGAACAAGGATACTAGGGGTACTGGCTTTGTTGTTTACAAGGATATCATTGATGCTAAGACGGTGGTGGATCACCTCTCCAAGTTCAACGTTCCTAATCGATATTTGATCGTGTTGTACTACCAGCAGGGCCAAGATGAGCAAAATGTT

Coding sequence (CDS)

ATGCGTAATCTTTCTCCTTCCATCACAAGATTGGCTAAGGTAATCGTGAGGAAGTTGAACAAAAAAGACATACAAAATTTTCGGCAAGTATGGGGCAATTCGGCATATTCGAACAAGGATACTAGGGGTACTGGCTTTGTTGTTTACAAGGATATCATTGATGCTAAGACGGTGGTGGATCACCTCTCCAAGTTCAACGTTCCTAATCGATATTTGATCGTGTTGTACTACCAGCAGGGCCAAGATGAGCAAAATGTT

Protein sequence

MRNLSPSITRLAKVIVRKLNKKDIQNFRQVWGNSAYSNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV
Homology
[Close]
BLAST of Lsi07G010630 vs. Swiss-Prot
Match: SF3B6_ARATH (Splicing factor 3B subunit 6-like protein OS=Arabidopsis thaliana GN=At5g12190 PE=2 SV=1)

HSP 1 Score: 66.6 bits (161), Expect = 1.5e-10
Identity = 31/44 (70.45%), Postives = 35/44 (79.55%), Query Frame = 1 

Query: 38 NKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +K T+GT FVVY+DI DAK  VDHLS FNV NRYLIVLYYQ  +
Sbjct: 53 DKATKGTAFVVYEDIYDAKNAVDHLSGFNVANRYLIVLYYQHAK 96

[Close]
BLAST of Lsi07G010630 vs. Swiss-Prot
Match: SF3B6_CAEEL (Splicing factor 3B subunit 6-like protein OS=Caenorhabditis elegans GN=C50D2.5 PE=3 SV=2)

HSP 1 Score: 64.7 bits (156), Expect = 5.7e-10
Identity = 31/47 (65.96%), Postives = 37/47 (78.72%), Query Frame = 1 

Query: 32 GNSAYSNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQ 79
          GN+A    +TRGT FVVY+DI DAKT  +HLS +NV NRYL+VLYYQ
Sbjct: 51 GNTA----ETRGTAFVVYEDIFDAKTACEHLSGYNVSNRYLVVLYYQ 93

[Close]
BLAST of Lsi07G010630 vs. Swiss-Prot
Match: SF3B6_DROME (Splicing factor 3B subunit 6-like protein OS=Drosophila melanogaster GN=CG13298 PE=1 SV=1)

HSP 1 Score: 64.3 bits (155), Expect = 7.4e-10
Identity = 29/42 (69.05%), Postives = 33/42 (78.57%), Query Frame = 1 

Query: 40 DTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +TRGT FVVY+DI DAK   DHLS FNV NRYL+VLYYQ  +
Sbjct: 51 ETRGTAFVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYQSNK 92

[Close]
BLAST of Lsi07G010630 vs. Swiss-Prot
Match: SF3B6_HUMAN (Splicing factor 3B subunit 6 OS=Homo sapiens GN=SF3B6 PE=1 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 6.3e-09
Identity = 28/47 (59.57%), Postives = 34/47 (72.34%), Query Frame = 1 

Query: 40  DTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +TRGT +VVY+DI DAK   DHLS FNV NRYL+VLYY   +  Q +
Sbjct: 55  ETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKM 101

[Close]
BLAST of Lsi07G010630 vs. Swiss-Prot
Match: SF3B6_MOUSE (Splicing factor 3B subunit 6 OS=Mus musculus GN=Sf3b6 PE=1 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 6.3e-09
Identity = 28/47 (59.57%), Postives = 34/47 (72.34%), Query Frame = 1 

Query: 40  DTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +TRGT +VVY+DI DAK   DHLS FNV NRYL+VLYY   +  Q +
Sbjct: 55  ETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKM 101

[Close]
BLAST of Lsi07G010630 vs. TrEMBL
Match: A0A022R8B2_ERYGU (Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a016278mg PE=4 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 2.5e-12
Identity = 37/45 (82.22%), Postives = 40/45 (88.89%), Query Frame = 1 

Query: 37 SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQG+
Sbjct: 52 TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQGK 96

[Close]
BLAST of Lsi07G010630 vs. TrEMBL
Match: B3TLZ0_ELAGV (RNA binding protein OS=Elaeis guineensis var. tenera PE=2 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 7.2e-12
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMSKKV 101

[Close]
BLAST of Lsi07G010630 vs. TrEMBL
Match: M0TI35_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1)

HSP 1 Score: 77.4 bits (189), Expect = 9.4e-12
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMAKKV 101

[Close]
BLAST of Lsi07G010630 vs. TrEMBL
Match: A0A118K4W4_CYNCS (Nucleotide-binding, alpha-beta plait OS=Cynara cardunculus var. scolymus GN=Ccrd_013487 PE=4 SV=1)

HSP 1 Score: 77.0 bits (188), Expect = 1.2e-11
Identity = 36/45 (80.00%), Postives = 39/45 (86.67%), Query Frame = 1 

Query: 37 SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +
Sbjct: 52 TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAK 96

[Close]
BLAST of Lsi07G010630 vs. TrEMBL
Match: A0A151U1T1_CAJCA (Pre-mRNA branch site p14-like protein OS=Cajanus cajan GN=KK1_005861 PE=4 SV=1)

HSP 1 Score: 77.0 bits (188), Expect = 1.2e-11
Identity = 36/45 (80.00%), Postives = 39/45 (86.67%), Query Frame = 1 

Query: 37 SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +
Sbjct: 52 TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAK 96

[Close]
BLAST of Lsi07G010630 vs. TAIR10
Match: AT5G12190.1 (AT5G12190.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 66.6 bits (161), Expect = 8.4e-12
Identity = 31/44 (70.45%), Postives = 35/44 (79.55%), Query Frame = 1 

Query: 38 NKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +K T+GT FVVY+DI DAK  VDHLS FNV NRYLIVLYYQ  +
Sbjct: 53 DKATKGTAFVVYEDIYDAKNAVDHLSGFNVANRYLIVLYYQHAK 96

[Close]
BLAST of Lsi07G010630 vs. NCBI nr
Match: gi|848875654|ref|XP_012838296.1| (PREDICTED: splicing factor 3B subunit 6-like protein [Erythranthe guttata])

HSP 1 Score: 79.3 bits (194), Expect = 3.5e-12
Identity = 37/45 (82.22%), Postives = 40/45 (88.89%), Query Frame = 1 

Query: 37 SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQ 82
          +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQG+
Sbjct: 52 TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQGK 96

[Close]
BLAST of Lsi07G010630 vs. NCBI nr
Match: gi|720091679|ref|XP_010245492.1| (PREDICTED: splicing factor 3B subunit 6-like protein [Nelumbo nucifera])

HSP 1 Score: 77.8 bits (190), Expect = 1.0e-11
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMSKKV 101

[Close]
BLAST of Lsi07G010630 vs. NCBI nr
Match: gi|672126732|ref|XP_008786825.1| (PREDICTED: splicing factor 3B subunit 6-like protein [Phoenix dactylifera])

HSP 1 Score: 77.8 bits (190), Expect = 1.0e-11
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMSKKV 101

[Close]
BLAST of Lsi07G010630 vs. NCBI nr
Match: gi|720097937|ref|XP_010247480.1| (PREDICTED: splicing factor 3B subunit 6-like protein [Nelumbo nucifera])

HSP 1 Score: 77.8 bits (190), Expect = 1.0e-11
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMSKKV 101

[Close]
BLAST of Lsi07G010630 vs. NCBI nr
Match: gi|672129934|ref|XP_008788488.1| (PREDICTED: splicing factor 3B subunit 6-like protein [Phoenix dactylifera])

HSP 1 Score: 77.8 bits (190), Expect = 1.0e-11
Identity = 37/50 (74.00%), Postives = 41/50 (82.00%), Query Frame = 1 

Query: 37  SNKDTRGTGFVVYKDIIDAKTVVDHLSKFNVPNRYLIVLYYQQGQDEQNV 87
           +NKDTRGT FVVY+DI DAKT VDHLS FNV NRYLIVLYYQQ +  + V
Sbjct: 52  TNKDTRGTAFVVYEDIYDAKTAVDHLSGFNVANRYLIVLYYQQAKMSKKV 101

The following BLAST results are available for this feature:
BLAST of Lsi07G010630 vs. Swiss-Prot
Match NameE-valueIdentityDescription
SF3B6_ARATH1.5e-1070.45Splicing factor 3B subunit 6-like protein OS=Arabidopsis thaliana GN=At5g12190 P... [more]
SF3B6_CAEEL5.7e-1065.96Splicing factor 3B subunit 6-like protein OS=Caenorhabditis elegans GN=C50D2.5 P... [more]
SF3B6_DROME7.4e-1069.05Splicing factor 3B subunit 6-like protein OS=Drosophila melanogaster GN=CG13298 ... [more]
SF3B6_HUMAN6.3e-0959.57Splicing factor 3B subunit 6 OS=Homo sapiens GN=SF3B6 PE=1 SV=1[more]
SF3B6_MOUSE6.3e-0959.57Splicing factor 3B subunit 6 OS=Mus musculus GN=Sf3b6 PE=1 SV=1[more]
BLAST of Lsi07G010630 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A022R8B2_ERYGU2.5e-1282.22Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a016278mg PE=4 SV=1[more]
B3TLZ0_ELAGV7.2e-1274.00RNA binding protein OS=Elaeis guineensis var. tenera PE=2 SV=1[more]
M0TI35_MUSAM9.4e-1274.00Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1[more]
A0A118K4W4_CYNCS1.2e-1180.00Nucleotide-binding, alpha-beta plait OS=Cynara cardunculus var. scolymus GN=Ccrd... [more]
A0A151U1T1_CAJCA1.2e-1180.00Pre-mRNA branch site p14-like protein OS=Cajanus cajan GN=KK1_005861 PE=4 SV=1[more]
BLAST of Lsi07G010630 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G12190.18.4e-1270.45 RNA-binding (RRM/RBD/RNP motifs) family protein[more]
BLAST of Lsi07G010630 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|848875654|ref|XP_012838296.1|3.5e-1282.22PREDICTED: splicing factor 3B subunit 6-like protein [Erythranthe guttata][more]
gi|720091679|ref|XP_010245492.1|1.0e-1174.00PREDICTED: splicing factor 3B subunit 6-like protein [Nelumbo nucifera][more]
gi|672126732|ref|XP_008786825.1|1.0e-1174.00PREDICTED: splicing factor 3B subunit 6-like protein [Phoenix dactylifera][more]
gi|720097937|ref|XP_010247480.1|1.0e-1174.00PREDICTED: splicing factor 3B subunit 6-like protein [Nelumbo nucifera][more]
gi|672129934|ref|XP_008788488.1|1.0e-1174.00PREDICTED: splicing factor 3B subunit 6-like protein [Phoenix dactylifera][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0000166nucleotide binding
Vocabulary: INTERPRO
TermDefinition
IPR012677Nucleotide-bd_a/b_plait_sf
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0000398 mRNA splicing, via spliceosome
cellular_component GO:0071013 catalytic step 2 spliceosome
cellular_component GO:0071011 precatalytic spliceosome
cellular_component GO:0005689 U12-type spliceosomal complex
cellular_component GO:0005686 U2 snRNP
cellular_component GO:0005684 U2-type spliceosomal complex
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0000166 nucleotide binding
Relationships

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

Feature NameUnique NameType
Lsi07G010630.1Lsi07G010630.1mRNA


InterPro
Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR012677Nucleotide-binding alpha-beta plait domainGENE3DG3DSA:3.30.70.330coord: 26..83
score: 4.
IPR012677Nucleotide-binding alpha-beta plait domainunknownSSF54928RNA-binding domain, RBDcoord: 6..82
score: 8.1
NoneNo IPR availablePANTHERPTHR12785FAMILY NOT NAMEDcoord: 37..86
score: 9.3

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:
GeneOrganismBlock
Lsi07G010630Cucumber (Gy14) v2cgyblsiB217
Lsi07G010630Melon (DHL92) v3.6.1lsimedB462
Lsi07G010630Melon (DHL92) v3.6.1lsimedB477
Lsi07G010630Silver-seed gourdcarlsiB146
Lsi07G010630Silver-seed gourdcarlsiB368
Lsi07G010630Silver-seed gourdcarlsiB389
Lsi07G010630Cucumber (Chinese Long) v3cuclsiB250
Lsi07G010630Cucumber (Chinese Long) v3cuclsiB498
Lsi07G010630Watermelon (97103) v2lsiwmbB392
Lsi07G010630Watermelon (97103) v2lsiwmbB395
Lsi07G010630Wax gourdlsiwgoB535
Lsi07G010630Wax gourdlsiwgoB569
Lsi07G010630Bottle gourd (USVL1VR-Ls)lsilsiB143
Lsi07G010630Cucumber (Gy14) v1cgylsiB530
Lsi07G010630Cucurbita maxima (Rimu)cmalsiB324
Lsi07G010630Cucurbita maxima (Rimu)cmalsiB452
Lsi07G010630Cucurbita maxima (Rimu)cmalsiB617
Lsi07G010630Cucurbita maxima (Rimu)cmalsiB776
Lsi07G010630Cucurbita moschata (Rifu)cmolsiB313
Lsi07G010630Cucurbita moschata (Rifu)cmolsiB439
Lsi07G010630Cucurbita moschata (Rifu)cmolsiB605
Lsi07G010630Cucurbita moschata (Rifu)cmolsiB767
Lsi07G010630Cucurbita pepo (Zucchini)cpelsiB066
Lsi07G010630Cucurbita pepo (Zucchini)cpelsiB183
Lsi07G010630Cucurbita pepo (Zucchini)cpelsiB474
Lsi07G010630Cucurbita pepo (Zucchini)cpelsiB722
Lsi07G010630Wild cucumber (PI 183967)cpilsiB227
Lsi07G010630Wild cucumber (PI 183967)cpilsiB476
Lsi07G010630Cucumber (Chinese Long) v2culsiB228
Lsi07G010630Cucumber (Chinese Long) v2culsiB468
Lsi07G010630Melon (DHL92) v3.5.1lsimeB446
Lsi07G010630Melon (DHL92) v3.5.1lsimeB459
Lsi07G010630Watermelon (Charleston Gray)lsiwcgB389
Lsi07G010630Watermelon (Charleston Gray)lsiwcgB395
Lsi07G010630Watermelon (97103) v1lsiwmB429
Lsi07G010630Watermelon (97103) v1lsiwmB453