Rorug06G0025900

Splicing factor 3B subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0008898
Physical Location & Seq
Forward (+)
3164440 .. 3164967
528 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0025900.1

Sequence Viewer

Length: 528 bp
ATGGGGTTTAGCAAGCTTTTCTTTGGTGTATGCTGCTTAGCAGTAATAATTATATTTCATGTCTCTCAAGCTACAGAAATTAACAATCCCAACCAAGGCTTCATTGATGCTGTTGTCAATCCCATCCAAGGCTTCATTGAAGAACACAACAAAGCTCGAGCAGAGGTCGGTGTTGGTCCATTGACATGGAGCAACACAGTAGCACTGTACGCACAAAAGTATGCCGATTCAAAAATTGAGACCTGCGAATTGAAGCTTTCTGGAGGACCGTATGGCGAGGCCTTGGCTGAAGGTTTTGGTGAAATGACGGCTGCGCAAGCTGTGAAGTTTTGGGTGACGTCAGAGAAGCCTAACTATGACTATGCCTCTAACAAATGTGTTAATGGTGAATGTTTGATTTATACACAAGTGGTTTGGCGCGATACTTTTCATCTTGGTTGTGCTAGGGTCAAGTGTAAAAATGGGCGGGTGTTTGTAATTTGTAACTATGATCCTCCTGGTAATATAGAAGGAGAGCGTCCCTATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

175

Amino Acids

19.33

Weight (kDa)

5.62

Isoelectric Point (pI)

31.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CAP PF00188 47 - 163 1.3e-19 Cysteine-rich secretory protein family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 341
Acc16I TGCGCA 1 cut(s) 315
Acc36I ACCTGC 1 cut(s) 251
AccII CGCG 1 cut(s) 420
AciI CCGC 1 cut(s) 466
AclWI GGATC 1 cut(s) 485
AcuI CTGAAG 1 cut(s) 309
AcyI GRCGYC 1 cut(s) 338
AfaI GTAC 1 cut(s) 209
AfiI CCNNNNNNNGG 2 cut(s) 95, 128
AgsI TTSAA 3 cut(s) 140, 231, 253
AjnI CCWGG 1 cut(s) 496
AjuI GAANNNNNNNTTGG 2 cut(s) 83, 115
AluBI AGCT 5 cut(s) 16, 71, 155, 256, 320
AluI AGCT 5 cut(s) 16, 71, 155, 256, 320
Alw26I GTCTC 2 cut(s) 67, 233
AlwI GGATC 1 cut(s) 485
Ama87I CYCGRG 1 cut(s) 156
AoxI GGCC 1 cut(s) 279
ApeKI GCWGC 2 cut(s) 33, 311
AspLEI GCGC 2 cut(s) 316, 420
AspS9I GGNCC 2 cut(s) 176, 266
AsuHPI GGTGA 3 cut(s) 311, 346, 398
AvaI CYCGRG 1 cut(s) 156
AvaII GGWCC 2 cut(s) 176, 266
BbvI GCAGC 2 cut(s) 20, 298
BccI CCATC 1 cut(s) 131
BceAI ACGGC 1 cut(s) 324
BciT130I CCWGG 1 cut(s) 498
BcoDI GTCTC 2 cut(s) 67, 233
BfaI CTAG 1 cut(s) 444
BfmI CTRYAG 1 cut(s) 72
BfuAI ACCTGC 1 cut(s) 251
BisI GCNGC 2 cut(s) 34, 312
BlpI GCTNAGC 1 cut(s) 37
BlsI GCNGC 2 cut(s) 35, 313
Bme1390I CCNGG 1 cut(s) 498
Bme18I GGWCC 2 cut(s) 176, 266
BmeT110I CYCGRG 1 cut(s) 156
BmgT120I GGNCC 2 cut(s) 176, 266
BmrFI CCNGG 1 cut(s) 498
BmsI GCATC 1 cut(s) 97
BpmI CTGGAG 1 cut(s) 282
Bpu1102I GCTNAGC 1 cut(s) 37
BpuEI CTTGAG 1 cut(s) 51
BsaHI GRCGYC 1 cut(s) 338
BsaI GGTCTC 1 cut(s) 233
BsaJI CCNNGG 3 cut(s) 94, 127, 282
Bsc4I CCNNNNNNNGG 2 cut(s) 95, 128
BseBI CCWGG 1 cut(s) 498
BseDI CCNNGG 3 cut(s) 94, 127, 282
BseGI GGATG 1 cut(s) 123
BseLI CCNNNNNNNGG 2 cut(s) 95, 128
BseXI GCAGC 2 cut(s) 20, 298
Bsh1236I CGCG 1 cut(s) 420
BshFI GGCC 1 cut(s) 281
BsiHKCI CYCGRG 1 cut(s) 156
BslFI GGGAC 1 cut(s) 504
BslI CCNNNNNNNGG 2 cut(s) 95, 128
BsmAI GTCTC 2 cut(s) 67, 233
BsmFI GGGAC 1 cut(s) 504
BsnI GGCC 1 cut(s) 281
Bso31I GGTCTC 1 cut(s) 233
BsoBI CYCGRG 1 cut(s) 156
Bsp143I GATC 1 cut(s) 490
Bsp1720I GCTNAGC 1 cut(s) 37
BspACI CCGC 1 cut(s) 466
BspANI GGCC 1 cut(s) 281
BspFNI CGCG 1 cut(s) 420
BspMI ACCTGC 1 cut(s) 251
BspPI GGATC 1 cut(s) 485
BspTNI GGTCTC 1 cut(s) 233
BssECI CCNNGG 3 cut(s) 94, 127, 282
BssMI GATC 1 cut(s) 490
BssNI GRCGYC 1 cut(s) 338
BssT1I CCWWGG 3 cut(s) 94, 127, 282
Bst2UI CCWGG 1 cut(s) 498
Bst4CI ACNGT 3 cut(s) 199, 207, 270
BstACI GRCGYC 1 cut(s) 338
BstC8I GCNNGC 2 cut(s) 14, 318
BstDEI CTNAG 1 cut(s) 37
BstF5I GGATG 1 cut(s) 123
BstFNI CGCG 1 cut(s) 420
BstHHI GCGC 2 cut(s) 316, 420
BstKTI GATC 1 cut(s) 493
BstMAI GTCTC 2 cut(s) 67, 233
BstMBI GATC 1 cut(s) 490
BstMWI GCNNNNNNNGC 2 cut(s) 209, 317
BstNI CCWGG 1 cut(s) 498
BstSCI CCNGG 1 cut(s) 496
BstSFI CTRYAG 1 cut(s) 72
BstUI CGCG 1 cut(s) 420
BstV1I GCAGC 2 cut(s) 20, 298
BstXI CCANNNNNNTGG 1 cut(s) 186
BsuRI GGCC 1 cut(s) 281
BtsCI GGATG 1 cut(s) 123
BtsIMutI CAGTG 1 cut(s) 203
BveI ACCTGC 1 cut(s) 251
Cac8I GCNNGC 2 cut(s) 14, 318
CfoI GCGC 2 cut(s) 316, 420
Cfr13I GGNCC 2 cut(s) 176, 266
CseI GACGC 1 cut(s) 506
Csp6I GTAC 1 cut(s) 208
CviAII CATG 2 cut(s) 59, 186
CviQI GTAC 1 cut(s) 208
DdeI CTNAG 1 cut(s) 37
DpnI GATC 1 cut(s) 492
DpnII GATC 1 cut(s) 490
Eco130I CCWWGG 3 cut(s) 94, 127, 282
Eco147I AGGCCT 1 cut(s) 281
Eco31I GGTCTC 1 cut(s) 233
Eco47I GGWCC 2 cut(s) 176, 266
Eco57I CTGAAG 1 cut(s) 309
Eco88I CYCGRG 1 cut(s) 156
EcoRII CCWGG 1 cut(s) 496
EcoT14I CCWWGG 3 cut(s) 94, 127, 282
ErhI CCWWGG 3 cut(s) 94, 127, 282
FaeI CATG 2 cut(s) 62, 189
FalI AAGNNNNNCTT 1 cut(s) 37
FaqI GGGAC 1 cut(s) 504
FatI CATG 2 cut(s) 58, 185
FauI CCCGC 1 cut(s) 459
Fnu4HI GCNGC 2 cut(s) 34, 312
FokI GGATG 1 cut(s) 110
Fsp4HI GCNGC 2 cut(s) 34, 312
FspBI CTAG 1 cut(s) 444
FspI TGCGCA 1 cut(s) 315
GlaI GCGC 2 cut(s) 315, 419
GluI GCNGC 2 cut(s) 34, 312
GsuI CTGGAG 1 cut(s) 282
HaeIII GGCC 1 cut(s) 281
HgaI GACGC 1 cut(s) 506
HhaI GCGC 2 cut(s) 316, 420
Hin1I GRCGYC 1 cut(s) 338
Hin1II CATG 2 cut(s) 62, 189
Hin6I GCGC 2 cut(s) 314, 418
HinP1I GCGC 2 cut(s) 314, 418
HindIII AAGCTT 2 cut(s) 14, 254
HinfI GANTC 1 cut(s) 227
HphI GGTGA 3 cut(s) 311, 346, 398
Hpy188I TCNGA 1 cut(s) 343
Hpy188III TCNNGA 1 cut(s) 261
HpyAV CCTTC 2 cut(s) 284, 503
HpyCH4III ACNGT 3 cut(s) 199, 207, 270
HpyCH4IV ACGT 1 cut(s) 338
HpyF10VI GCNNNNNNNGC 2 cut(s) 209, 317
HpyF3I CTNAG 1 cut(s) 37
HpySE526I ACGT 1 cut(s) 338
Hsp92I GRCGYC 1 cut(s) 338
Hsp92II CATG 2 cut(s) 62, 189
HspAI GCGC 2 cut(s) 314, 418
Kzo9I GATC 1 cut(s) 490
LmnI GCTCC 1 cut(s) 189
LpnPI CCDG 4 cut(s) 246, 256, 483, 510
Lsp1109I GCAGC 2 cut(s) 20, 298
LweI GCATC 1 cut(s) 97
MaeI CTAG 1 cut(s) 444
MaeII ACGT 1 cut(s) 338
MaeIII GTNAC 2 cut(s) 334, 482
MalI GATC 1 cut(s) 492
MboI GATC 1 cut(s) 490
MboII GAAGA 1 cut(s) 152
MluCI AATT 5 cut(s) 48, 78, 234, 248, 477
MnlI CCTC 5 cut(s) 157, 257, 271, 376, 504
MseI TTAA 3 cut(s) 81, 381, 526
MslI CAYNNNNRTG 1 cut(s) 184
MspR9I CCNGG 1 cut(s) 498
MvaI CCWGG 1 cut(s) 498
MvnI CGCG 1 cut(s) 420
MwoI GCNNNNNNNGC 2 cut(s) 209, 317
NdeII GATC 1 cut(s) 490
NlaIII CATG 2 cut(s) 62, 189
NmuCI GTSAC 1 cut(s) 334
NsbI TGCGCA 1 cut(s) 315
PaeR7I CTCGAG 1 cut(s) 156
PceI AGGCCT 1 cut(s) 281
PfeI GAWTC 1 cut(s) 227
PkrI GCNGC 2 cut(s) 35, 313
Psp6I CCWGG 1 cut(s) 496
PspGI CCWGG 1 cut(s) 496
PspPI GGNCC 2 cut(s) 176, 266
PspXI VCTCGAGB 1 cut(s) 156
RsaI GTAC 1 cut(s) 209
RsaNI GTAC 1 cut(s) 208
RseI CAYNNNNRTG 1 cut(s) 184
SaqAI TTAA 3 cut(s) 81, 381, 526
SatI GCNGC 2 cut(s) 34, 312
Sau3AI GATC 1 cut(s) 490
Sau96I GGNCC 2 cut(s) 176, 266
ScrFI CCNGG 1 cut(s) 498
SetI ASST 9 cut(s) 18, 73, 157, 168, 245, 258, 295, 322, 341
SfaNI GCATC 1 cut(s) 97
SfcI CTRYAG 1 cut(s) 72
Sfr274I CTCGAG 1 cut(s) 156
SinI GGWCC 2 cut(s) 176, 266
SlaI CTCGAG 1 cut(s) 156
SmiMI CAYNNNNRTG 1 cut(s) 184
SmlI CTYRAG 2 cut(s) 66, 156
SmoI CTYRAG 2 cut(s) 66, 156
Sse9I AATT 5 cut(s) 48, 78, 234, 248, 477
SseBI AGGCCT 1 cut(s) 281
SsiI CCGC 1 cut(s) 466
SspMI CTAG 1 cut(s) 444
StuI AGGCCT 1 cut(s) 281
StyD4I CCNGG 1 cut(s) 496
StyI CCWWGG 3 cut(s) 94, 127, 282
TaaI ACNGT 3 cut(s) 199, 207, 270
TaiI ACGT 1 cut(s) 341
TaqI TCGA 1 cut(s) 157
TasI AATT 5 cut(s) 48, 78, 234, 248, 477
TfiI GAWTC 1 cut(s) 227
Tru1I TTAA 3 cut(s) 81, 381, 526
Tru9I TTAA 3 cut(s) 81, 381, 526
TscAI CASTG 1 cut(s) 210
TseFI GTSAC 1 cut(s) 334
TseI GCWGC 2 cut(s) 33, 311
Tsp45I GTSAC 1 cut(s) 334
TspDTI ATGAA 4 cut(s) 47, 91, 124, 419
TspRI CASTG 1 cut(s) 210
VpaK11BI GGWCC 2 cut(s) 176, 266
XhoI CTCGAG 1 cut(s) 156
XspI CTAG 1 cut(s) 444
ZraI GACGTC 1 cut(s) 339
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.