Rw5G034090

Splicing factor U2af small subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0006476
Physical Location & Seq
Reverse (-)
58445169 .. 58446218
1050 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G034090.1

Sequence Viewer

Length: 633 bp
ATGTATATTTGTGCAAAATTGCAGGAATTTTATGAGGATCTCTTTCAAGAGCTGAGTAAGTATGGAGAAATTGAAAGCCTGAATGTCTGCGACAACCTAGCTGACCACATGGTGGGCAATGTGTATGTTCAGTTCAGGGAGGAAGAACATGCTGCAAATGCACTCAAGAATCTGACTGGAAGATTTTATGCTGGGCGTCCTATCATTGTGGACTTCTCTCCGGTGACAGACTTCCGTGAAGCCACCTGCAGGCAATATGACGAAAATACGTGCAATCGTGGTGGATACTGCAATTTTATGCATCTGAAAAGGATTGGGAGGCATAGCCGGAGTCGAAGCAGGAGCCGCAGCCCTTACAGGCATCGTAGCTATGAAGAACGCCCTCATGGTAGCCATGGTCATAGCAGAAGGTATGATGATGGGGATCGGTATCCTGAGAGAAGGAACAGGACTGTAAGCCCTGGCCGAAGTAGGCGGGAACGCAGTAGAAGCAGGAGCACTGAAAGGAGGAGGAGAAGGAACCCCAGTCCATGGAACAGGGAAAGAGAACAAAATGAAATTGCTTCCAAGGTCACCTCTGTCAGAAGTGACAATGGGCATGCTCAAACTGAAAATCAGAACGGCTCTGAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko05131 map03040 map05131
Pfam Domains
Protein Families
RRM_1 zf-CCCH

Protein Analysis

210

Amino Acids

24.89

Weight (kDa)

9.63

Isoelectric Point (pI)

90.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 12 - 68 4e-07 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 254
Acc36I ACCTGC 1 cut(s) 254
AccB7I CCANNNNNTGG 2 cut(s) 112, 531
AciI CCGC 2 cut(s) 346, 475
AclWI GGATC 2 cut(s) 45, 432
AcoI YGGCCR 1 cut(s) 463
AcsI RAATTY 1 cut(s) 26
AcyI GRCGYC 1 cut(s) 196
AdeI CACNNNGTG 1 cut(s) 112
AfiI CCNNNNNNNGG 3 cut(s) 112, 249, 531
AgsI TTSAA 2 cut(s) 47, 74
AjnI CCWGG 1 cut(s) 460
AluBI AGCT 3 cut(s) 52, 101, 369
AluI AGCT 3 cut(s) 52, 101, 369
Alw21I GWGCWC 1 cut(s) 500
AlwI GGATC 2 cut(s) 45, 432
AoxI GGCC 1 cut(s) 463
ApeKI GCWGC 2 cut(s) 152, 348
ApoI RAATTY 1 cut(s) 26
AsuHPI GGTGA 2 cut(s) 235, 565
Bbv12I GWGCWC 1 cut(s) 500
BbvI GCAGC 2 cut(s) 139, 360
BccI CCATC 1 cut(s) 413
BciT130I CCWGG 1 cut(s) 462
BciVI GTATCC 2 cut(s) 278, 441
BfaI CTAG 1 cut(s) 98
BfmI CTRYAG 1 cut(s) 247
BfuAI ACCTGC 1 cut(s) 254
BfuI GTATCC 2 cut(s) 278, 441
BisI GCNGC 3 cut(s) 153, 346, 349
BlsI GCNGC 3 cut(s) 154, 347, 350
Bme1390I CCNGG 1 cut(s) 462
BmiI GGNNCC 2 cut(s) 344, 521
BmrFI CCNGG 1 cut(s) 462
BmrI ACTGGG 1 cut(s) 519
BmsI GCATC 2 cut(s) 310, 370
BmuI ACTGGG 1 cut(s) 519
BpuEI CTTGAG 1 cut(s) 149
BsaAI YACGTR 1 cut(s) 270
BsaBI GATNNNNATC 2 cut(s) 423, 429
BsaHI GRCGYC 1 cut(s) 196
BsaJI CCNNGG 4 cut(s) 394, 460, 530, 567
BsaWI WCCGGW 1 cut(s) 220
Bsc4I CCNNNNNNNGG 3 cut(s) 112, 249, 531
Bse1I ACTGG 2 cut(s) 181, 525
Bse3DI GCAATG 1 cut(s) 124
Bse8I GATNNNNATC 2 cut(s) 423, 429
BseBI CCWGG 1 cut(s) 462
BseDI CCNNGG 4 cut(s) 394, 460, 530, 567
BseJI GATNNNNATC 2 cut(s) 423, 429
BseLI CCNNNNNNNGG 3 cut(s) 112, 249, 531
BseMI GCAATG 1 cut(s) 124
BseMII CTCAG 3 cut(s) 44, 426, 618
BseNI ACTGG 2 cut(s) 181, 525
BseRI GAGGAG 2 cut(s) 523, 526
BseXI GCAGC 2 cut(s) 139, 360
BseYI CCCAGC 1 cut(s) 191
BshFI GGCC 1 cut(s) 465
BsiHKAI GWGCWC 1 cut(s) 500
BsiSI CCGG 2 cut(s) 221, 328
BslI CCNNNNNNNGG 3 cut(s) 112, 249, 531
BsnI GGCC 1 cut(s) 465
Bsp1286I GDGCHC 1 cut(s) 500
Bsp143I GATC 2 cut(s) 37, 424
Bsp19I CCATGG 2 cut(s) 394, 530
BspACI CCGC 2 cut(s) 346, 475
BspANI GGCC 1 cut(s) 465
BspCNI CTCAG 3 cut(s) 45, 427, 619
BspLI GGNNCC 2 cut(s) 344, 521
BspMAI CTGCAG 1 cut(s) 251
BspMI ACCTGC 1 cut(s) 254
BspPI GGATC 2 cut(s) 45, 432
BsrDI GCAATG 1 cut(s) 124
BsrI ACTGG 2 cut(s) 181, 525
BssECI CCNNGG 4 cut(s) 394, 460, 530, 567
BssMI GATC 2 cut(s) 37, 424
BssNI GRCGYC 1 cut(s) 196
BssT1I CCWWGG 3 cut(s) 394, 530, 567
Bst2UI CCWGG 1 cut(s) 462
Bst4CI ACNGT 1 cut(s) 454
BstACI GRCGYC 1 cut(s) 196
BstBAI YACGTR 1 cut(s) 270
BstC8I GCNNGC 2 cut(s) 251, 600
BstDEI CTNAG 3 cut(s) 53, 435, 627
BstDSI CCRYGG 2 cut(s) 394, 530
BstEII GGTNACC 1 cut(s) 571
BstKTI GATC 2 cut(s) 40, 427
BstMBI GATC 2 cut(s) 37, 424
BstMWI GCNNNNNNNGC 3 cut(s) 158, 345, 489
BstNI CCWGG 1 cut(s) 462
BstNSI RCATGY 2 cut(s) 152, 602
BstPI GGTNACC 1 cut(s) 571
BstSCI CCNGG 1 cut(s) 460
BstSFI CTRYAG 1 cut(s) 247
BstV1I GCAGC 2 cut(s) 139, 360
BstX2I RGATCY 1 cut(s) 37
BstYI RGATCY 1 cut(s) 37
BsuI GTATCC 2 cut(s) 278, 441
BsuRI GGCC 1 cut(s) 465
BtgI CCRYGG 2 cut(s) 394, 530
BtsIMutI CAGTG 1 cut(s) 498
BveI ACCTGC 1 cut(s) 254
Cac8I GCNNGC 2 cut(s) 251, 600
CseI GACGC 1 cut(s) 185
CspCI CAANNNNNGTGG 2 cut(s) 262, 297
CviAII CATG 6 cut(s) 109, 149, 386, 395, 531, 599
DdeI CTNAG 3 cut(s) 53, 435, 627
DpnI GATC 2 cut(s) 39, 426
DpnII GATC 2 cut(s) 37, 424
DraIII CACNNNGTG 1 cut(s) 112
EaeI YGGCCR 1 cut(s) 463
Eco130I CCWWGG 3 cut(s) 394, 530, 567
Eco91I GGTNACC 1 cut(s) 571
EcoO65I GGTNACC 1 cut(s) 571
EcoRII CCWGG 1 cut(s) 460
EcoT14I CCWWGG 3 cut(s) 394, 530, 567
EcoT22I ATGCAT 1 cut(s) 303
ErhI CCWWGG 3 cut(s) 394, 530, 567
FaeI CATG 6 cut(s) 112, 152, 389, 398, 534, 602
FatI CATG 6 cut(s) 108, 148, 385, 394, 530, 598
FauI CCCGC 1 cut(s) 468
Fnu4HI GCNGC 3 cut(s) 153, 346, 349
Fsp4HI GCNGC 3 cut(s) 153, 346, 349
FspBI CTAG 1 cut(s) 98
GluI GCNGC 3 cut(s) 153, 346, 349
GsaI CCCAGC 1 cut(s) 195
HaeIII GGCC 1 cut(s) 465
HapII CCGG 2 cut(s) 221, 328
HgaI GACGC 1 cut(s) 185
Hin1I GRCGYC 1 cut(s) 196
Hin1II CATG 6 cut(s) 112, 152, 389, 398, 534, 602
HinfI GANTC 2 cut(s) 169, 331
HpaII CCGG 2 cut(s) 221, 328
HphI GGTGA 2 cut(s) 235, 565
Hpy166II GTNNAC 1 cut(s) 211
Hpy188I TCNGA 5 cut(s) 174, 306, 584, 618, 628
Hpy188III TCNNGA 3 cut(s) 47, 166, 434
Hpy8I GTNNAC 1 cut(s) 211
HpyAV CCTTC 3 cut(s) 402, 435, 510
HpyCH4III ACNGT 1 cut(s) 454
HpyCH4IV ACGT 1 cut(s) 269
HpyCH4V TGCA 8 cut(s) 14, 22, 155, 161, 249, 273, 291, 301
HpyF10VI GCNNNNNNNGC 3 cut(s) 158, 345, 489
HpyF3I CTNAG 3 cut(s) 53, 435, 627
HpySE526I ACGT 1 cut(s) 269
Hsp92I GRCGYC 1 cut(s) 196
Hsp92II CATG 6 cut(s) 112, 152, 389, 398, 534, 602
Kzo9I GATC 2 cut(s) 37, 424
LmnI GCTCC 2 cut(s) 342, 495
Lsp1109I GCAGC 2 cut(s) 139, 360
LweI GCATC 2 cut(s) 310, 370
MaeI CTAG 1 cut(s) 98
MaeII ACGT 1 cut(s) 269
MaeIII GTNAC 3 cut(s) 223, 571, 587
MalI GATC 2 cut(s) 39, 426
MboI GATC 2 cut(s) 37, 424
MboII GAAGA 3 cut(s) 155, 192, 386
MflI RGATCY 1 cut(s) 37
MhlI GDGCHC 1 cut(s) 500
MluCI AATT 5 cut(s) 17, 26, 69, 292, 558
MlyI GAGTC 1 cut(s) 340
MnlI CCTC 7 cut(s) 28, 133, 312, 393, 501, 504, 586
Mph1103I ATGCAT 1 cut(s) 303
MspI CCGG 2 cut(s) 221, 328
MspR9I CCNGG 1 cut(s) 462
MvaI CCWGG 1 cut(s) 462
MwoI GCNNNNNNNGC 3 cut(s) 158, 345, 489
NcoI CCATGG 2 cut(s) 394, 530
NdeII GATC 2 cut(s) 37, 424
NlaIII CATG 6 cut(s) 112, 152, 389, 398, 534, 602
NlaIV GGNNCC 2 cut(s) 344, 521
NmuCI GTSAC 3 cut(s) 223, 571, 587
NsiI ATGCAT 1 cut(s) 303
NspI RCATGY 2 cut(s) 152, 602
PaeI GCATGC 1 cut(s) 602
PaqCI CACCTGC 1 cut(s) 254
PfeI GAWTC 1 cut(s) 169
PflMI CCANNNNNTGG 2 cut(s) 112, 531
PkrI GCNGC 3 cut(s) 154, 347, 350
PleI GAGTC 1 cut(s) 339
PpsI GAGTC 1 cut(s) 339
Ppu21I YACGTR 1 cut(s) 270
Psp6I CCWGG 1 cut(s) 460
PspEI GGTNACC 1 cut(s) 571
PspFI CCCAGC 1 cut(s) 191
PspGI CCWGG 1 cut(s) 460
PspN4I GGNNCC 2 cut(s) 344, 521
PsrI GAACNNNNNNTAC 2 cut(s) 116, 148
PstI CTGCAG 1 cut(s) 251
PsuI RGATCY 1 cut(s) 37
SatI GCNGC 3 cut(s) 153, 346, 349
Sau3AI GATC 2 cut(s) 37, 424
SbfI CCTGCAGG 1 cut(s) 251
SchI GAGTC 1 cut(s) 340
ScrFI CCNGG 1 cut(s) 462
SdaI CCTGCAGG 1 cut(s) 251
SduI GDGCHC 1 cut(s) 500
SetI ASST 9 cut(s) 54, 99, 103, 248, 272, 371, 413, 573, 578
SfaNI GCATC 2 cut(s) 310, 370
SfcI CTRYAG 1 cut(s) 247
SmlI CTYRAG 1 cut(s) 164
SmoI CTYRAG 1 cut(s) 164
SphI GCATGC 1 cut(s) 602
Sse8387I CCTGCAGG 1 cut(s) 251
Sse9I AATT 5 cut(s) 17, 26, 69, 292, 558
SsiI CCGC 2 cut(s) 346, 475
SspMI CTAG 1 cut(s) 98
StyD4I CCNGG 1 cut(s) 460
StyI CCWWGG 3 cut(s) 394, 530, 567
TaaI ACNGT 1 cut(s) 454
TaiI ACGT 1 cut(s) 272
TaqI TCGA 1 cut(s) 334
TasI AATT 5 cut(s) 17, 26, 69, 292, 558
TauI GCSGC 1 cut(s) 348
TfiI GAWTC 1 cut(s) 169
TscAI CASTG 1 cut(s) 505
TseFI GTSAC 3 cut(s) 223, 571, 587
TseI GCWGC 2 cut(s) 152, 348
Tsp45I GTSAC 3 cut(s) 223, 571, 587
TspDTI ATGAA 2 cut(s) 387, 570
TspGWI ACGGA 1 cut(s) 224
TspRI CASTG 1 cut(s) 505
Van91I CCANNNNNTGG 2 cut(s) 112, 531
XapI RAATTY 1 cut(s) 26
XceI RCATGY 2 cut(s) 152, 602
XspI CTAG 1 cut(s) 98
Zsp2I ATGCAT 1 cut(s) 303
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.