WMU66812 (transcribed_cluster) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	WMU66812
Type	transcribed_cluster
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Splicing factor 3B subunit 1
Location	Chr10 : 13057633 .. 13057989 (-)
Sequence length	365

Genome Viewer

Sequences

The following sequences are available for this feature:

transcribed_cluster sequence

GTATGGCCGAACATATTCGAAACAATCACCACACGTCATAAACGCTGTGATGGAAGCCATTGAAGGAATGAGGGTGGCATTGGGTGCAGCTAAGTTGTGCTCAACTACTGCCTGCAGGGGCTTTTTCACCCCGCTCGGAAAAGTACGAGAAGTATACTGGAAAATCTACAACTCACTGTACATTGGTGCTCAGGATGCTCTCGTTGCATCTTATCCTGCATTAGAGGATGGAGAAAACATGTGTACAGCCGACCGGAACTGGTGATTGTTTATCTGAAGTTTCTTCAATTTTGTTGCAAATGAGAGGCGATAGATGATAGGCCTCTGAATTCTTGTTGAAGAGTATGTATTGAATTTAGTTGATT

Library


Library category	ESTs
watermelon fruit 18d library	1

Homology

[Close]

BLAST of WMU66812 vs. TAIR10
Match: AT5G64270.1 (AT5G64270.1 splicing factor, putative)

HSP 1 Score: 103.6 bits (257), Expect = 8.7e-23
Identity = 53/71 (74.65%), Postives = 56/71 (78.87%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQD LV
Sbjct: 1188 SPHVINAVMEAIEGMRVALGAAVILNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDTLV 1247

Query: 86   ASYPALEDGEN 145
            A+YP LED +N
Sbjct: 1248 AAYPVLEDEQN 1257

Query: 146   205
            
Sbjct: 1308  1257

Query: 206   239
            
Sbjct: 1368  1257

HSP 2 Score: 47.8 bits (112), Expect = 5.7e-06
Identity = 34/96 (35.42%), Postives = 50/96 (52.08%), Query Frame = 1


Query: 1    VWPNIFET----ITTRHKRCDGSH*RNEGGIGCS*VVLNYCLQGLFHPARKSTRSILENL 60
            +WPNIFET    I    +  +G        +G + V+LNYCLQGLFHPARK  R +   +
Sbjct: 1180 IWPNIFETSPHVINAVMEAIEGMR----VALGAA-VILNYCLQGLFHPARK-VREVYWKI 1239

Query: 61   QLTVHWCSGCSRCILSC---IRGWRKHVYSRPELVI 120
              +++   G    +++    +   + +VYSRPEL +
Sbjct: 1240 YNSLY--IGAQDTLVAAYPVLEDEQNNVYSRPELTM 1267

Query: 121   180
            
Sbjct: 1300  1267

Query: 181   240
            
Sbjct: 1360  1267

Query: 241   268
            
Sbjct: 1420  1267

[Close]

BLAST of WMU66812 vs. Swiss-Prot
Match: SF3B1_XENLA (Splicing factor 3B subunit 1 OS=Xenopus laevis GN=sf3b1 PE=2 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 9.7e-16
Identity = 40/70 (57.14%), Postives = 50/70 (71.43%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVI AVM A+EG+RVA+G  ++      +G F P  KVR+VYWKIYNS+YIG+QDAL+
Sbjct: 1226 SPHVIQAVMGALEGLRVAIGPCRMVQY-CLQGLFHPARKVRDVYWKIYNSIYIGSQDALI 1285

Query: 86   ASYPALEDGE 145
            A YP + + E
Sbjct: 1286 AHYPRIYNDE 1294

Query: 146   205
            
Sbjct: 1346  1294

Query: 206   236
            
Sbjct: 1406  1294

HSP 2 Score: 38.9 bits (89), Expect = 4.7e-02
Identity = 23/47 (48.94%), Postives = 25/47 (53.19%), Query Frame = 1


Query: 1    VWPNIFETITTRHKRCDGSH*RNEGGIGCS*VVLNYCLQGLFHPARK 60
            VWPN+FET     +   G+       IG   +V  YCLQGLFHPARK
Sbjct: 1218 VWPNVFETSPHVIQAVMGALEGLRVAIGPCRMV-QYCLQGLFHPARK 1263

Query: 61    120
            
Sbjct: 1278  1263

Query: 121   142
            
Sbjct: 1338  1263

[Close]

BLAST of WMU66812 vs. Swiss-Prot
Match: SF3B1_HUMAN (Splicing factor 3B subunit 1 OS=Homo sapiens GN=SF3B1 PE=1 SV=3)

HSP 1 Score: 83.2 bits (204), Expect = 2.2e-15
Identity = 39/66 (59.09%), Postives = 48/66 (72.73%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVI AVM A+EG+RVA+G  ++      +G F P  KVR+VYWKIYNS+YIG+QDAL+
Sbjct: 1223 SPHVIQAVMGALEGLRVAIGPCRMLQY-CLQGLFHPARKVRDVYWKIYNSIYIGSQDALI 1282

Query: 86   ASYPAL 145
            A YP +
Sbjct: 1283 AHYPRI 1287

Query: 146   205
            
Sbjct: 1343  1287

Query: 206   224
            
Sbjct: 1403  1287

HSP 2 Score: 40.0 bits (92), Expect = 2.1e-02
Identity = 24/48 (50.00%), Postives = 26/48 (54.17%), Query Frame = 1


Query: 1    VWPNIFETITTRHKRCDGSH*RNEGGIG-CS*VVLNYCLQGLFHPARK 60
            VWPN+FET     +   G+       IG C   +L YCLQGLFHPARK
Sbjct: 1215 VWPNVFETSPHVIQAVMGALEGLRVAIGPCR--MLQYCLQGLFHPARK 1260

Query: 61    120
            
Sbjct: 1275  1260

Query: 121   142
            
Sbjct: 1335  1260

[Close]

BLAST of WMU66812 vs. Swiss-Prot
Match: SF3B1_MOUSE (Splicing factor 3B subunit 1 OS=Mus musculus GN=Sf3b1 PE=1 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 2.2e-15
Identity = 39/66 (59.09%), Postives = 48/66 (72.73%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVI AVM A+EG+RVA+G  ++      +G F P  KVR+VYWKIYNS+YIG+QDAL+
Sbjct: 1223 SPHVIQAVMGALEGLRVAIGPCRMLQY-CLQGLFHPARKVRDVYWKIYNSIYIGSQDALI 1282

Query: 86   ASYPAL 145
            A YP +
Sbjct: 1283 AHYPRI 1287

Query: 146   205
            
Sbjct: 1343  1287

Query: 206   224
            
Sbjct: 1403  1287

HSP 2 Score: 40.0 bits (92), Expect = 2.1e-02
Identity = 24/48 (50.00%), Postives = 26/48 (54.17%), Query Frame = 1


Query: 1    VWPNIFETITTRHKRCDGSH*RNEGGIG-CS*VVLNYCLQGLFHPARK 60
            VWPN+FET     +   G+       IG C   +L YCLQGLFHPARK
Sbjct: 1215 VWPNVFETSPHVIQAVMGALEGLRVAIGPCR--MLQYCLQGLFHPARK 1260

Query: 61    120
            
Sbjct: 1275  1260

Query: 121   142
            
Sbjct: 1335  1260

[Close]

BLAST of WMU66812 vs. Swiss-Prot
Match: SF3B1_SCHPO (U2 snRNP component prp10 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=prp10 PE=1 SV=3)

HSP 1 Score: 65.9 bits (159), Expect = 3.6e-10
Identity = 31/72 (43.06%), Postives = 43/72 (59.72%), Query Frame = 2


Query: 20   KQSPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDA 79
            ++SPHVINAV E I+G+R  +G   + +    +G F P  KVR  YW  YNS Y+ + DA
Sbjct: 1122 EESPHVINAVREGIDGIRNCIGVGPIMAYLV-QGLFHPSRKVRNTYWTSYNSAYVQSADA 1181

Query: 80   LVASYPALEDGE 139
            +V  YP ++D +
Sbjct: 1182 MVPYYPHVDDDQ 1192

Query: 140   199
            
Sbjct: 1242  1192

Query: 200   236
            
Sbjct: 1302  1192

[Close]

BLAST of WMU66812 vs. NCBI nr
Match: gi|449438767|ref|XP_004137159.1| (PREDICTED: splicing factor 3B subunit 1 [Cucumis sativus])

HSP 1 Score: 114.0 bits (284), Expect = 1.8e-22
Identity = 58/71 (81.69%), Postives = 61/71 (85.92%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQDALV
Sbjct: 1181 SPHVINAVMEAIEGMRVALGAAVVLNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDALV 1240

Query: 86   ASYPALEDGEN 145
            ASYPALEDGEN
Sbjct: 1241 ASYPALEDGEN 1250

Query: 146   205
            
Sbjct: 1301  1250

Query: 206   239
            
Sbjct: 1361  1250

[Close]

BLAST of WMU66812 vs. NCBI nr
Match: gi|659125826|ref|XP_008462876.1| (PREDICTED: splicing factor 3B subunit 1 [Cucumis melo])

HSP 1 Score: 114.0 bits (284), Expect = 1.8e-22
Identity = 58/71 (81.69%), Postives = 61/71 (85.92%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQDALV
Sbjct: 1181 SPHVINAVMEAIEGMRVALGAAVVLNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDALV 1240

Query: 86   ASYPALEDGEN 145
            ASYPALEDGEN
Sbjct: 1241 ASYPALEDGEN 1250

Query: 146   205
            
Sbjct: 1301  1250

Query: 206   239
            
Sbjct: 1361  1250

[Close]

BLAST of WMU66812 vs. NCBI nr
Match: gi|947072375|gb|KRH21266.1| (hypothetical protein GLYMA_13G2292001, partial [Glycine max])

HSP 1 Score: 109.8 bits (273), Expect = 3.4e-21
Identity = 56/71 (78.87%), Postives = 60/71 (84.51%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQDALV
Sbjct: 1068 SPHVINAVMEAIEGMRVALGAAVVLNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDALV 1127

Query: 86   ASYPALEDGEN 145
            ASYPALED +N
Sbjct: 1128 ASYPALEDEQN 1137

Query: 146   205
            
Sbjct: 1188  1137

Query: 206   239
            
Sbjct: 1248  1137

[Close]

BLAST of WMU66812 vs. NCBI nr
Match: gi|356546579|ref|XP_003541702.1| (PREDICTED: splicing factor 3B subunit 1 [Glycine max])

HSP 1 Score: 109.8 bits (273), Expect = 3.4e-21
Identity = 56/71 (78.87%), Postives = 60/71 (84.51%), Query Frame = 2


Query: 26   SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
            SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQDALV
Sbjct: 1091 SPHVINAVMEAIEGMRVALGAAVVLNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDALV 1150

Query: 86   ASYPALEDGEN 145
            ASYPALED +N
Sbjct: 1151 ASYPALEDEQN 1160

Query: 146   205
            
Sbjct: 1211  1160

Query: 206   239
            
Sbjct: 1271  1160

[Close]

BLAST of WMU66812 vs. NCBI nr
Match: gi|971587292|ref|XP_015161052.1| (PREDICTED: LOW QUALITY PROTEIN: splicing factor 3B subunit 1-like [Solanum tuberosum])

HSP 1 Score: 109.4 bits (272), Expect = 4.5e-21
Identity = 56/71 (78.87%), Postives = 59/71 (83.10%), Query Frame = 2


Query: 26  SPHVINAVMEAIEGMRVALGAAKLCSTTACRGFFTPLGKVREVYWKIYNSLYIGAQDALV 85
           SPHVINAVMEAIEGMRVALGAA + +    +G F P  KVREVYWKIYNSLYIGAQDALV
Sbjct: 338 SPHVINAVMEAIEGMRVALGAAVVLNY-CLQGLFHPARKVREVYWKIYNSLYIGAQDALV 397

Query: 86  ASYPALEDGEN 145
           ASYP LED EN
Sbjct: 398 ASYPILEDDEN 407

Query: 146  205
           
Sbjct: 458  407

Query: 206  239
           
Sbjct: 518  407

The following BLAST results are available for this feature:

BLAST of WMU66812 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G64270.1	8.7e-23	74.65	splicing factor, putative	[more]

BLAST of WMU66812 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SF3B1_XENLA	9.7e-16	57.14	Splicing factor 3B subunit 1 OS=Xenopus laevis GN=sf3b1 PE=2 SV=1	[more]
SF3B1_HUMAN	2.2e-15	59.09	Splicing factor 3B subunit 1 OS=Homo sapiens GN=SF3B1 PE=1 SV=3	[more]
SF3B1_MOUSE	2.2e-15	59.09	Splicing factor 3B subunit 1 OS=Mus musculus GN=Sf3b1 PE=1 SV=1	[more]
SF3B1_SCHPO	3.6e-10	43.06	U2 snRNP component prp10 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) ...	[more]

BLAST of WMU66812 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449438767\|ref\|XP_004137159.1\|	1.8e-22	81.69	PREDICTED: splicing factor 3B subunit 1 [Cucumis sativus]	[more]
gi\|659125826\|ref\|XP_008462876.1\|	1.8e-22	81.69	PREDICTED: splicing factor 3B subunit 1 [Cucumis melo]	[more]
gi\|947072375\|gb\|KRH21266.1\|	3.4e-21	78.87	hypothetical protein GLYMA_13G2292001, partial [Glycine max]	[more]
gi\|356546579\|ref\|XP_003541702.1\|	3.4e-21	78.87	PREDICTED: splicing factor 3B subunit 1 [Glycine max]	[more]
gi\|971587292\|ref\|XP_015161052.1\|	4.5e-21	78.87	PREDICTED: LOW QUALITY PROTEIN: splicing factor 3B subunit 1-like [Solanum tuber...	[more]

Annotated Terms

The following terms have been associated with this transcribed_cluster:

Vocabulary: **INTERPRO**
Term	Definition

Relationships

This transcribed_cluster is associated with the following gene feature(s):


Feature Name	Unique Name	Type
Cla002487	Cla002487	gene

The following EST feature(s) are a part of this transcribed_cluster:


Feature Name	Unique Name	Type
S2_0153038	S2_0153038	EST

InterPro

Analysis Name: InterPro Annotations of watermelon unigene v2
Date Performed: 2016-11-16


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR12097	SPLICING FACTOR 3B, SUBUNIT 1-RELATED	coord: 10..80 score: 7.3
None	No IPR available	PANTHER	PTHR12097:SF1	NUCLEAR PROTEIN-LIKE	coord: 10..80 score: 7.3