Rroxscaffold_1G00024920

Splicing factor U2af small subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0006476
Physical Location & Seq
Forward (+)
30996036 .. 30999630
3595 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00024920.1

Sequence Viewer

Length: 900 bp
ATGGCGGAGCACTTGGCTTCAATCTTTGGGACGGAGAAGGACAGAGTGAACTGCCCCTTCTACTTCAAAATAGGGGCGTGCAGGCACGGCGATCGGTGCTCCAGGCTTCACACGAAGCCCAGCGTCAGCCCGACTCTGTTGCTCTCCAATATGTACCAGAGGCCCGATATGATCACCCCCGGCGTCGACGCCCAGGGCCAGCCTATCGACCCCCGCCAGATGCAAACCCATTTCGAGGAATTTTATGAGGATCTCTTTCAAGAGCTGAGTAAGTATGGAGAAATTGAAAGCCTGAATGTGGGCAATGTGTATGTTCAGTTCAGGGAGGAAGAACATGCTGCAAATGCACTCAAGAATCTGACTGGAAGATTTTATGCTGGGCGTCCTATCATTGTGGATTTCTCTCCGGTGACAGACTTCCGTGAAGCCACCTGCAGGCAATATGAGGAAAATACATGCAATCGTGGTGGATACTGCAACTTTATGCATCTGAAAAGGATTGGGAGGGAATTGAGGCGTGAGTTATTTAGGAGCTACCGGCGAAGGCATAGCCGGAGTCGAAGCAGGAGCCGCAGCCCTTACAGGCATCGTAGCTATGAAGAACGCCCTCATGGTAGCCATGGTCATAGCAGAAGGTATGATGATGGGGATCGGTATCCTGAGAGAAGGAACAGGACTGTAAGCCCTGGCCGAAGTAGGCGGGAACGCAGTAGAAGCAGGAGCACTGAAAGGAGGAGGAGAAGGAACCCCAGTCCAGTTAGAGAAGGCAGTGAGGAGAGACGAGCCAAAATTGAACAGTGGAACAGGGAAAGAGAACAAAATGAAATTGCTTCCGTGGTCACCTCTGTCAGAAGTGACAATGGGCATGCTCAAACTGAAAATCAGAACGGCTATGAGTAA
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

299

Amino Acids

35.45

Weight (kDa)

9.83

Isoelectric Point (pI)

84.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH PF00642 14 - 37 2.2e-07 Zinc finger C-x8-C-x5-C-x3-H type (and similar)
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) 440
Acc36I ACCTGC 1 cut(s) 440
AccI GTMKAC 1 cut(s) 186
AciI CCGC 4 cut(s) 5, 214, 571, 700
AclWI GGATC 2 cut(s) 258, 657
AcoI YGGCCR 1 cut(s) 688
AcsI RAATTY 1 cut(s) 239
AcyI GRCGYC 3 cut(s) 183, 189, 382
AfaI GTAC 1 cut(s) 155
AfiI CCNNNNNNNGG 3 cut(s) 235, 298, 435
AgsI TTSAA 5 cut(s) 21, 67, 260, 287, 794
AjnI CCWGG 3 cut(s) 101, 192, 685
AluBI AGCT 3 cut(s) 265, 534, 594
AluI AGCT 3 cut(s) 265, 534, 594
Alw21I GWGCWC 3 cut(s) 12, 101, 725
Alw26I GTCTC 1 cut(s) 772
AlwI GGATC 2 cut(s) 258, 657
AoxI GGCC 3 cut(s) 161, 196, 688
ApeKI GCWGC 2 cut(s) 338, 573
ApoI RAATTY 1 cut(s) 239
AspS9I GGNCC 2 cut(s) 162, 196
AsuC2I CCSGG 1 cut(s) 180
AsuHPI GGTGA 3 cut(s) 166, 421, 832
Bbv12I GWGCWC 3 cut(s) 12, 101, 725
BbvI GCAGC 2 cut(s) 325, 585
BccI CCATC 1 cut(s) 638
BceAI ACGGC 1 cut(s) 103
BcgI CGANNNNNNTGC 4 cut(s) 74, 108, 121, 155
BciT130I CCWGG 3 cut(s) 103, 194, 687
BciVI GTATCC 2 cut(s) 464, 666
BclI TGATCA 1 cut(s) 171
BcnI CCSGG 1 cut(s) 180
BcoDI GTCTC 1 cut(s) 772
BfmI CTRYAG 1 cut(s) 433
BfuAI ACCTGC 1 cut(s) 440
BfuI GTATCC 2 cut(s) 464, 666
BisI GCNGC 3 cut(s) 339, 571, 574
BlsI GCNGC 3 cut(s) 340, 572, 575
Bme1390I CCNGG 4 cut(s) 103, 180, 194, 687
BmgT120I GGNCC 2 cut(s) 162, 196
BmiI GGNNCC 2 cut(s) 569, 746
BmrFI CCNGG 4 cut(s) 103, 180, 194, 687
BmrI ACTGGG 1 cut(s) 744
BmsI GCATC 3 cut(s) 210, 496, 595
BmuI ACTGGG 1 cut(s) 744
BpmI CTGGAG 1 cut(s) 85
BpuEI CTTGAG 1 cut(s) 335
BpuMI CCSGG 1 cut(s) 180
BsaBI GATNNNNATC 2 cut(s) 648, 654
BsaHI GRCGYC 3 cut(s) 183, 189, 382
BsaJI CCNNGG 6 cut(s) 178, 192, 193, 619, 685, 834
BsaWI WCCGGW 1 cut(s) 406
Bsc4I CCNNNNNNNGG 3 cut(s) 235, 298, 435
Bse118I RCCGGY 1 cut(s) 537
Bse1I ACTGG 3 cut(s) 367, 750, 755
Bse3DI GCAATG 1 cut(s) 310
Bse8I GATNNNNATC 2 cut(s) 648, 654
BseBI CCWGG 3 cut(s) 103, 194, 687
BseDI CCNNGG 6 cut(s) 178, 192, 193, 619, 685, 834
BseJI GATNNNNATC 2 cut(s) 648, 654
BseLI CCNNNNNNNGG 3 cut(s) 235, 298, 435
BseMI GCAATG 1 cut(s) 310
BseMII CTCAG 2 cut(s) 257, 651
BseNI ACTGG 3 cut(s) 367, 750, 755
BseRI GAGGAG 3 cut(s) 748, 751, 788
BseXI GCAGC 2 cut(s) 325, 585
BseYI CCCAGC 2 cut(s) 119, 377
BsgI GTGCAG 1 cut(s) 100
Bsh1285I CGRYCG 1 cut(s) 94
BshFI GGCC 3 cut(s) 163, 198, 690
BsiEI CGRYCG 1 cut(s) 94
BsiHKAI GWGCWC 3 cut(s) 12, 101, 725
BsiSI CCGG 4 cut(s) 180, 407, 538, 553
BslFI GGGAC 1 cut(s) 43
BslI CCNNNNNNNGG 3 cut(s) 235, 298, 435
BsmAI GTCTC 1 cut(s) 772
BsmBI CGTCTC 1 cut(s) 772
BsmFI GGGAC 1 cut(s) 43
BsnI GGCC 3 cut(s) 163, 198, 690
Bsp1286I GDGCHC 3 cut(s) 12, 101, 725
Bsp143I GATC 4 cut(s) 91, 171, 250, 649
Bsp19I CCATGG 1 cut(s) 619
BspACI CCGC 4 cut(s) 5, 214, 571, 700
BspANI GGCC 3 cut(s) 163, 198, 690
BspCNI CTCAG 2 cut(s) 258, 652
BspLI GGNNCC 2 cut(s) 569, 746
BspMAI CTGCAG 1 cut(s) 437
BspMI ACCTGC 1 cut(s) 440
BspPI GGATC 2 cut(s) 258, 657
BsrDI GCAATG 1 cut(s) 310
BsrFI RCCGGY 1 cut(s) 537
BsrI ACTGG 3 cut(s) 367, 750, 755
BssAI RCCGGY 1 cut(s) 537
BssECI CCNNGG 6 cut(s) 178, 192, 193, 619, 685, 834
BssMI GATC 4 cut(s) 91, 171, 250, 649
BssNI GRCGYC 3 cut(s) 183, 189, 382
BssT1I CCWWGG 1 cut(s) 619
Bst2UI CCWGG 3 cut(s) 103, 194, 687
Bst4CI ACNGT 2 cut(s) 679, 798
BstACI GRCGYC 3 cut(s) 183, 189, 382
BstC8I GCNNGC 5 cut(s) 79, 83, 200, 437, 867
BstDEI CTNAG 2 cut(s) 266, 660
BstDSI CCRYGG 2 cut(s) 619, 834
BstEII GGTNACC 1 cut(s) 838
BstKTI GATC 4 cut(s) 94, 174, 253, 652
BstMAI GTCTC 1 cut(s) 772
BstMBI GATC 4 cut(s) 91, 171, 250, 649
BstMCI CGRYCG 1 cut(s) 94
BstMWI GCNNNNNNNGC 5 cut(s) 87, 96, 344, 570, 714
BstNI CCWGG 3 cut(s) 103, 194, 687
BstNSI RCATGY 3 cut(s) 338, 459, 869
BstPI GGTNACC 1 cut(s) 838
BstSCI CCNGG 4 cut(s) 101, 178, 192, 685
BstSFI CTRYAG 1 cut(s) 433
BstV1I GCAGC 2 cut(s) 325, 585
BstX2I RGATCY 1 cut(s) 250
BstYI RGATCY 1 cut(s) 250
BsuI GTATCC 2 cut(s) 464, 666
BsuRI GGCC 3 cut(s) 163, 198, 690
BtgI CCRYGG 2 cut(s) 619, 834
BtsI GCAGTG 1 cut(s) 775
BtsIMutI CAGTG 3 cut(s) 723, 775, 803
BveI ACCTGC 1 cut(s) 440
Cac8I GCNNGC 5 cut(s) 79, 83, 200, 437, 867
Cfr10I RCCGGY 1 cut(s) 537
Cfr13I GGNCC 2 cut(s) 162, 196
CseI GACGC 4 cut(s) 112, 172, 197, 371
Csp6I GTAC 1 cut(s) 154
CspCI CAANNNNNGTGG 2 cut(s) 448, 483
CviAII CATG 5 cut(s) 335, 456, 611, 620, 866
CviQI GTAC 1 cut(s) 154
DdeI CTNAG 2 cut(s) 266, 660
DpnI GATC 4 cut(s) 93, 173, 252, 651
DpnII GATC 4 cut(s) 91, 171, 250, 649
EaeI YGGCCR 1 cut(s) 688
EciI GGCGGA 1 cut(s) 20
Eco130I CCWWGG 1 cut(s) 619
Eco91I GGTNACC 1 cut(s) 838
EcoO65I GGTNACC 1 cut(s) 838
EcoRII CCWGG 3 cut(s) 101, 192, 685
EcoT14I CCWWGG 1 cut(s) 619
EcoT22I ATGCAT 1 cut(s) 489
ErhI CCWWGG 1 cut(s) 619
Esp3I CGTCTC 1 cut(s) 772
FaeI CATG 5 cut(s) 338, 459, 614, 623, 869
FaqI GGGAC 1 cut(s) 43
FatI CATG 5 cut(s) 334, 455, 610, 619, 865
FauI CCCGC 2 cut(s) 221, 693
FbaI TGATCA 1 cut(s) 171
FblI GTMKAC 1 cut(s) 186
Fnu4HI GCNGC 3 cut(s) 339, 571, 574
Fsp4HI GCNGC 3 cut(s) 339, 571, 574
GluI GCNGC 3 cut(s) 339, 571, 574
GsaI CCCAGC 2 cut(s) 123, 381
GsuI CTGGAG 1 cut(s) 85
HaeIII GGCC 3 cut(s) 163, 198, 690
HapII CCGG 4 cut(s) 180, 407, 538, 553
HgaI GACGC 4 cut(s) 112, 172, 197, 371
Hin1I GRCGYC 3 cut(s) 183, 189, 382
Hin1II CATG 5 cut(s) 338, 459, 614, 623, 869
HincII GTYRAC 1 cut(s) 187
HindII GTYRAC 1 cut(s) 187
HinfI GANTC 3 cut(s) 133, 355, 556
HpaII CCGG 4 cut(s) 180, 407, 538, 553
HphI GGTGA 3 cut(s) 166, 421, 832
Hpy166II GTNNAC 2 cut(s) 49, 187
Hpy188I TCNGA 4 cut(s) 360, 492, 851, 885
Hpy188III TCNNGA 3 cut(s) 260, 352, 659
Hpy8I GTNNAC 2 cut(s) 49, 187
Hpy99I CGWCG 2 cut(s) 188, 191
HpyAV CCTTC 7 cut(s) 31, 67, 537, 627, 660, 735, 758
HpyCH4III ACNGT 2 cut(s) 679, 798
HpyCH4V TGCA 8 cut(s) 81, 223, 341, 347, 435, 459, 477, 487
HpyF10VI GCNNNNNNNGC 5 cut(s) 87, 96, 344, 570, 714
HpyF3I CTNAG 2 cut(s) 266, 660
Hsp92I GRCGYC 3 cut(s) 183, 189, 382
Hsp92II CATG 5 cut(s) 338, 459, 614, 623, 869
Ksp22I TGATCA 1 cut(s) 171
Kzo9I GATC 4 cut(s) 91, 171, 250, 649
LmnI GCTCC 5 cut(s) 7, 104, 531, 567, 720
Lsp1109I GCAGC 2 cut(s) 325, 585
LweI GCATC 3 cut(s) 210, 496, 595
MaeIII GTNAC 3 cut(s) 409, 838, 854
MalI GATC 4 cut(s) 93, 173, 252, 651
MboI GATC 4 cut(s) 91, 171, 250, 649
MboII GAAGA 3 cut(s) 341, 378, 611
MflI RGATCY 1 cut(s) 250
MhlI GDGCHC 3 cut(s) 12, 101, 725
MluCI AATT 5 cut(s) 239, 282, 509, 789, 825
MlyI GAGTC 2 cut(s) 127, 565
Mph1103I ATGCAT 1 cut(s) 489
MspI CCGG 4 cut(s) 180, 407, 538, 553
MspR9I CCNGG 4 cut(s) 103, 180, 194, 687
MvaI CCWGG 3 cut(s) 103, 194, 687
MwoI GCNNNNNNNGC 5 cut(s) 87, 96, 344, 570, 714
NciI CCSGG 1 cut(s) 180
NcoI CCATGG 1 cut(s) 619
NdeII GATC 4 cut(s) 91, 171, 250, 649
NlaIII CATG 5 cut(s) 338, 459, 614, 623, 869
NlaIV GGNNCC 2 cut(s) 569, 746
NmuCI GTSAC 3 cut(s) 409, 838, 854
NsiI ATGCAT 1 cut(s) 489
NspI RCATGY 3 cut(s) 338, 459, 869
PaeI GCATGC 1 cut(s) 869
PaqCI CACCTGC 1 cut(s) 440
PasI CCCWGGG 1 cut(s) 193
PfeI GAWTC 1 cut(s) 355
PkrI GCNGC 3 cut(s) 340, 572, 575
Ple19I CGATCG 1 cut(s) 94
PleI GAGTC 2 cut(s) 127, 564
PpsI GAGTC 2 cut(s) 127, 564
Psp6I CCWGG 3 cut(s) 101, 192, 685
PspEI GGTNACC 1 cut(s) 838
PspFI CCCAGC 2 cut(s) 119, 377
PspGI CCWGG 3 cut(s) 101, 192, 685
PspN4I GGNNCC 2 cut(s) 569, 746
PspPI GGNCC 2 cut(s) 162, 196
PsrI GAACNNNNNNTAC 2 cut(s) 302, 334
PstI CTGCAG 1 cut(s) 437
PsuI RGATCY 1 cut(s) 250
PvuI CGATCG 1 cut(s) 94
RsaI GTAC 1 cut(s) 155
RsaNI GTAC 1 cut(s) 154
SalI GTCGAC 1 cut(s) 185
SatI GCNGC 3 cut(s) 339, 571, 574
Sau3AI GATC 4 cut(s) 91, 171, 250, 649
Sau96I GGNCC 2 cut(s) 162, 196
SbfI CCTGCAGG 1 cut(s) 437
SchI GAGTC 2 cut(s) 127, 565
ScrFI CCNGG 4 cut(s) 103, 180, 194, 687
SdaI CCTGCAGG 1 cut(s) 437
SduI GDGCHC 3 cut(s) 12, 101, 725
SetI ASST 6 cut(s) 267, 434, 536, 596, 638, 845
SfaNI GCATC 3 cut(s) 210, 496, 595
SfcI CTRYAG 1 cut(s) 433
SgrDI CGTCGACG 1 cut(s) 185
SmlI CTYRAG 1 cut(s) 350
SmoI CTYRAG 1 cut(s) 350
SphI GCATGC 1 cut(s) 869
Sse8387I CCTGCAGG 1 cut(s) 437
Sse9I AATT 5 cut(s) 239, 282, 509, 789, 825
SsiI CCGC 4 cut(s) 5, 214, 571, 700
StyD4I CCNGG 4 cut(s) 101, 178, 192, 685
StyI CCWWGG 1 cut(s) 619
TaaI ACNGT 2 cut(s) 679, 798
TaqI TCGA 4 cut(s) 186, 207, 234, 559
TasI AATT 5 cut(s) 239, 282, 509, 789, 825
TauI GCSGC 1 cut(s) 573
TfiI GAWTC 1 cut(s) 355
TscAI CASTG 3 cut(s) 730, 775, 803
TseFI GTSAC 3 cut(s) 409, 838, 854
TseI GCWGC 2 cut(s) 338, 573
Tsp45I GTSAC 3 cut(s) 409, 838, 854
TspDTI ATGAA 2 cut(s) 612, 837
TspGWI ACGGA 3 cut(s) 47, 410, 823
TspRI CASTG 3 cut(s) 730, 775, 803
XapI RAATTY 1 cut(s) 239
XceI RCATGY 3 cut(s) 338, 459, 869
XmiI GTMKAC 1 cut(s) 186
Zsp2I ATGCAT 1 cut(s) 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.