MD03G1134200.v1.1

Splicing factor U2af small subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0006476
Physical Location & Seq
Forward (+)
13400302 .. 13404360
4059 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1134200.v1.1.491

Sequence Viewer

Length: 948 bp
ATGGCGGAGCATTTGGCTTCGATATTCGGGACGGAGAAGGACCGAGTGAACTGCCCTTTCTACTTCAAAATTGGGGCGTGTAGGCACGGCGACCGCTGCTCCAGACTCCACACCAAGCCCAGCGTCAGCCCCACGATCTTGCTCTCCAACATGTACCAGCGACCCGATATGATCACCCCGGGCGTCGACGCCGAGGGCCAGCCCATCGACCCCCGCCAGATGCAGAGGCACTTTGAGGAGTTTTATGAGGATTTATTTCTCGAGTTGAGCAAGTATGGCGACATTGAAAGTCTGAATGTCTGCGACAACCTAGCCGACCACATGGTGGGCAATGTGTGTGTTCAGTTTAGGGAGGAAGAACATGCTGCAAATGCGCTTCGGAACCTGAGTGGAAGATTTTATGCTGGTCGTCCTATCATTGTTGACTATTCACCGGTGACAGACTTCCGTGAAGCCACCTGCAGGCAATATGAGGAGAACACATGCAACCGTGGTGGATACTGCAATTTTATGCACCTGAAAAGGATTGGCAGGGAATTGAGGCGTGAATTATTTGGGAGCTATAAGAGAAGGCATAGCCGCAGTCGAAGCAGGAGTCGCAGCCCTTACGGGCATCGTAGCTATGAAGAGCGCTCTCACCGTAGCCGGGGTCATAGCAGAAGGTATGATGATGAGGATCGCTATCCTGAAAGCTGGAGCCGGAGGAACAAGACTGTAAGCCCTGGTCGAAGGAAAGGACGCAGTAGAAGTAGAAGCCCTGGAAGAAGAAGAAGAAACCAGAGTCCTGTTAGAGAAGGAAGTGAGGAGAGACGGGCAAAAATTGAGCAGTGGAACAGGGAAAGAGAACAGGATGAAAATGCTAGTAAGGTCAATATTGACCGAAGCAACATTAATGGGCATGCACAAATGGAACAACAGAACAATGGCCGTGAGGAACAGCAACAATAG
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

316

Amino Acids

37.21

Weight (kDa)

9.52

Isoelectric Point (pI)

90.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH PF00642 14 - 37 2.4e-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) 467
Acc36I ACCTGC 1 cut(s) 467
AccB7I CCANNNNNTGG 1 cut(s) 325
AccI GTMKAC 1 cut(s) 186
AciI CCGC 4 cut(s) 5, 94, 214, 580
AclWI GGATC 1 cut(s) 684
AcoI YGGCCR 1 cut(s) 925
AcyI GRCGYC 2 cut(s) 183, 189
AdeI CACNNNGTG 1 cut(s) 325
AfaI GTAC 1 cut(s) 155
AfeI AGCGCT 1 cut(s) 632
AfiI CCNNNNNNNGG 3 cut(s) 325, 462, 646
AflIII ACRYGT 1 cut(s) 150
AgeI ACCGGT 1 cut(s) 433
AgsI TTSAA 2 cut(s) 67, 287
AjnI CCWGG 2 cut(s) 721, 757
AluBI AGCT 3 cut(s) 561, 621, 693
AluI AGCT 3 cut(s) 561, 621, 693
Alw26I GTCTC 1 cut(s) 802
AlwI GGATC 1 cut(s) 684
Ama87I CYCGRG 2 cut(s) 178, 260
Aor51HI AGCGCT 1 cut(s) 632
AoxI GGCC 2 cut(s) 196, 925
ApeKI GCWGC 3 cut(s) 96, 365, 600
ArsI GACNNNNNNTTYG 2 cut(s) 580, 612
AseI ATTAAT 1 cut(s) 891
AsiGI ACCGGT 1 cut(s) 433
AspLEI GCGC 2 cut(s) 376, 633
AspS9I GGNCC 2 cut(s) 40, 196
AsuC2I CCSGG 3 cut(s) 179, 180, 647
AsuHPI GGTGA 4 cut(s) 166, 423, 448, 629
AvaI CYCGRG 2 cut(s) 178, 260
AvaII GGWCC 1 cut(s) 40
BbvI GCAGC 3 cut(s) 83, 352, 612
BccI CCATC 1 cut(s) 212
BceAI ACGGC 2 cut(s) 103, 912
BcgI CGANNNNNNTGC 2 cut(s) 33, 67
BciT130I CCWGG 2 cut(s) 723, 759
BciVI GTATCC 1 cut(s) 491
BclI TGATCA 1 cut(s) 171
BcnI CCSGG 3 cut(s) 179, 180, 647
BcoDI GTCTC 1 cut(s) 802
BfaI CTAG 2 cut(s) 311, 861
BfmI CTRYAG 1 cut(s) 460
BfoI RGCGCY 1 cut(s) 634
BfuAI ACCTGC 1 cut(s) 467
BfuI GTATCC 1 cut(s) 491
BisI GCNGC 4 cut(s) 97, 366, 580, 601
BlsI GCNGC 4 cut(s) 98, 367, 581, 602
Bme1390I CCNGG 5 cut(s) 179, 180, 647, 723, 759
Bme18I GGWCC 1 cut(s) 40
BmeT110I CYCGRG 2 cut(s) 178, 260
BmgT120I GGNCC 2 cut(s) 40, 196
BmiI GGNNCC 2 cut(s) 383, 698
BmrFI CCNGG 5 cut(s) 179, 180, 647, 723, 759
BmsI GCATC 2 cut(s) 210, 622
BpmI CTGGAG 2 cut(s) 85, 715
BpuMI CCSGG 3 cut(s) 179, 180, 647
BsaBI GATNNNNATC 2 cut(s) 675, 681
BsaHI GRCGYC 2 cut(s) 183, 189
BsaJI CCNNGG 7 cut(s) 177, 178, 192, 490, 646, 721, 757
BsaWI WCCGGW 1 cut(s) 433
BsaXI ACNNNNNCTCC 2 cut(s) 83, 113
Bsc4I CCNNNNNNNGG 3 cut(s) 325, 462, 646
Bse118I RCCGGY 1 cut(s) 433
Bse3DI GCAATG 1 cut(s) 337
Bse8I GATNNNNATC 2 cut(s) 675, 681
BseBI CCWGG 2 cut(s) 723, 759
BseDI CCNNGG 7 cut(s) 177, 178, 192, 490, 646, 721, 757
BseGI GGATG 1 cut(s) 856
BseJI GATNNNNATC 2 cut(s) 675, 681
BseLI CCNNNNNNNGG 3 cut(s) 325, 462, 646
BseMI GCAATG 1 cut(s) 337
BseMII CTCAG 1 cut(s) 377
BseRI GAGGAG 3 cut(s) 251, 488, 818
BseXI GCAGC 3 cut(s) 83, 352, 612
BseYI CCCAGC 1 cut(s) 119
Bsh1285I CGRYCG 1 cut(s) 94
BshFI GGCC 2 cut(s) 198, 927
BshTI ACCGGT 1 cut(s) 433
BsiEI CGRYCG 1 cut(s) 94
BsiHKCI CYCGRG 2 cut(s) 178, 260
BsiSI CCGG 4 cut(s) 179, 434, 646, 700
BslFI GGGAC 1 cut(s) 43
BslI CCNNNNNNNGG 3 cut(s) 325, 462, 646
BsmAI GTCTC 1 cut(s) 802
BsmBI CGTCTC 1 cut(s) 802
BsmFI GGGAC 1 cut(s) 43
BsnI GGCC 2 cut(s) 198, 927
BsoBI CYCGRG 2 cut(s) 178, 260
Bsp143I GATC 3 cut(s) 135, 171, 676
BspACI CCGC 4 cut(s) 5, 94, 214, 580
BspANI GGCC 2 cut(s) 198, 927
BspCNI CTCAG 1 cut(s) 378
BspLI GGNNCC 2 cut(s) 383, 698
BspMAI CTGCAG 1 cut(s) 464
BspMI ACCTGC 1 cut(s) 467
BspPI GGATC 1 cut(s) 684
BspQI GCTCTTC 1 cut(s) 621
BsrDI GCAATG 1 cut(s) 337
BsrFI RCCGGY 1 cut(s) 433
BssAI RCCGGY 1 cut(s) 433
BssECI CCNNGG 7 cut(s) 177, 178, 192, 490, 646, 721, 757
BssMI GATC 3 cut(s) 135, 171, 676
BssNI GRCGYC 2 cut(s) 183, 189
Bst2UI CCWGG 2 cut(s) 723, 759
Bst4CI ACNGT 3 cut(s) 491, 641, 715
Bst6I CTCTTC 1 cut(s) 621
BstACI GRCGYC 2 cut(s) 183, 189
BstC8I GCNNGC 3 cut(s) 200, 464, 900
BstDEI CTNAG 1 cut(s) 386
BstDSI CCRYGG 1 cut(s) 490
BstF5I GGATG 1 cut(s) 856
BstH2I RGCGCY 1 cut(s) 634
BstHHI GCGC 2 cut(s) 376, 633
BstKTI GATC 3 cut(s) 138, 174, 679
BstMAI GTCTC 1 cut(s) 802
BstMBI GATC 3 cut(s) 135, 171, 676
BstMCI CGRYCG 1 cut(s) 94
BstMWI GCNNNNNNNGC 5 cut(s) 96, 276, 371, 588, 597
BstNI CCWGG 2 cut(s) 723, 759
BstNSI RCATGY 4 cut(s) 154, 365, 486, 902
BstSCI CCNGG 5 cut(s) 177, 178, 645, 721, 757
BstSFI CTRYAG 1 cut(s) 460
BstV1I GCAGC 3 cut(s) 83, 352, 612
BsuI GTATCC 1 cut(s) 491
BsuRI GGCC 2 cut(s) 198, 927
BtgI CCRYGG 1 cut(s) 490
BtsCI GGATG 1 cut(s) 856
BtsI GCAGTG 1 cut(s) 833
BtsIMutI CAGTG 1 cut(s) 833
BveI ACCTGC 1 cut(s) 467
Cac8I GCNNGC 3 cut(s) 200, 464, 900
CfoI GCGC 2 cut(s) 376, 633
Cfr10I RCCGGY 1 cut(s) 433
Cfr13I GGNCC 2 cut(s) 40, 196
Cfr9I CCCGGG 1 cut(s) 178
CseI GACGC 4 cut(s) 112, 172, 197, 747
Csp6I GTAC 1 cut(s) 154
CspAI ACCGGT 1 cut(s) 433
CspCI CAANNNNNGTGG 2 cut(s) 475, 510
CviAII CATG 5 cut(s) 151, 322, 362, 483, 899
CviQI GTAC 1 cut(s) 154
DdeI CTNAG 1 cut(s) 386
DpnI GATC 3 cut(s) 137, 173, 678
DpnII GATC 3 cut(s) 135, 171, 676
DraIII CACNNNGTG 1 cut(s) 325
EaeI YGGCCR 1 cut(s) 925
Eam1104I CTCTTC 1 cut(s) 621
EarI CTCTTC 1 cut(s) 621
EciI GGCGGA 1 cut(s) 20
Eco47I GGWCC 1 cut(s) 40
Eco47III AGCGCT 1 cut(s) 632
Eco88I CYCGRG 2 cut(s) 178, 260
EcoRII CCWGG 2 cut(s) 721, 757
Esp3I CGTCTC 1 cut(s) 802
FaeI CATG 5 cut(s) 154, 325, 365, 486, 902
FaqI GGGAC 1 cut(s) 43
FatI CATG 5 cut(s) 150, 321, 361, 482, 898
FauI CCCGC 1 cut(s) 221
FbaI TGATCA 1 cut(s) 171
FblI GTMKAC 1 cut(s) 186
Fnu4HI GCNGC 4 cut(s) 97, 366, 580, 601
FokI GGATG 1 cut(s) 863
Fsp4HI GCNGC 4 cut(s) 97, 366, 580, 601
FspBI CTAG 2 cut(s) 311, 861
GlaI GCGC 2 cut(s) 375, 632
GluI GCNGC 4 cut(s) 97, 366, 580, 601
GsaI CCCAGC 1 cut(s) 123
GsuI CTGGAG 2 cut(s) 85, 715
HaeII RGCGCY 1 cut(s) 634
HaeIII GGCC 2 cut(s) 198, 927
HapII CCGG 4 cut(s) 179, 434, 646, 700
HgaI GACGC 4 cut(s) 112, 172, 197, 747
HhaI GCGC 2 cut(s) 376, 633
Hin1I GRCGYC 2 cut(s) 183, 189
Hin1II CATG 5 cut(s) 154, 325, 365, 486, 902
Hin6I GCGC 2 cut(s) 374, 631
HinP1I GCGC 2 cut(s) 374, 631
HincII GTYRAC 2 cut(s) 187, 424
HindII GTYRAC 2 cut(s) 187, 424
HinfI GANTC 3 cut(s) 105, 595, 781
HpaII CCGG 4 cut(s) 179, 434, 646, 700
HphI GGTGA 4 cut(s) 166, 423, 448, 629
Hpy166II GTNNAC 3 cut(s) 49, 187, 424
Hpy188I TCNGA 2 cut(s) 294, 381
Hpy188III TCNNGA 4 cut(s) 28, 102, 260, 686
Hpy8I GTNNAC 3 cut(s) 49, 187, 424
Hpy99I CGWCG 2 cut(s) 188, 191
HpyAV CCTTC 5 cut(s) 31, 564, 654, 723, 788
HpyCH4III ACNGT 3 cut(s) 491, 641, 715
HpyCH4V TGCA 7 cut(s) 223, 368, 462, 486, 504, 514, 902
HpyF10VI GCNNNNNNNGC 5 cut(s) 96, 276, 371, 588, 597
HpyF3I CTNAG 1 cut(s) 386
Hsp92I GRCGYC 2 cut(s) 183, 189
Hsp92II CATG 5 cut(s) 154, 325, 365, 486, 902
HspAI GCGC 2 cut(s) 374, 631
Ksp22I TGATCA 1 cut(s) 171
Kzo9I GATC 3 cut(s) 135, 171, 676
LguI GCTCTTC 1 cut(s) 621
LmnI GCTCC 4 cut(s) 7, 104, 558, 696
Lsp1109I GCAGC 3 cut(s) 83, 352, 612
LweI GCATC 2 cut(s) 210, 622
MaeI CTAG 2 cut(s) 311, 861
MaeIII GTNAC 1 cut(s) 436
MalI GATC 3 cut(s) 137, 173, 678
MboI GATC 3 cut(s) 135, 171, 676
MboII GAAGA 7 cut(s) 368, 405, 638, 774, 777, 780, 783
MluCI AATT 5 cut(s) 69, 505, 536, 548, 819
MlyI GAGTC 3 cut(s) 99, 604, 790
MmeI TCCRAC 1 cut(s) 171
MseI TTAA 1 cut(s) 891
MspA1I CMGCKG 1 cut(s) 96
MspI CCGG 4 cut(s) 179, 434, 646, 700
MspR9I CCNGG 5 cut(s) 179, 180, 647, 723, 759
MvaI CCWGG 2 cut(s) 723, 759
MwoI GCNNNNNNNGC 5 cut(s) 96, 276, 371, 588, 597
NciI CCSGG 3 cut(s) 179, 180, 647
NdeII GATC 3 cut(s) 135, 171, 676
NlaIII CATG 5 cut(s) 154, 325, 365, 486, 902
NlaIV GGNNCC 2 cut(s) 383, 698
NmeAIII GCCGAG 1 cut(s) 217
NmuCI GTSAC 1 cut(s) 436
NspI RCATGY 4 cut(s) 154, 365, 486, 902
PaeI GCATGC 1 cut(s) 902
PaeR7I CTCGAG 1 cut(s) 260
PaqCI CACCTGC 1 cut(s) 467
PciI ACATGT 1 cut(s) 150
PciSI GCTCTTC 1 cut(s) 621
PflMI CCANNNNNTGG 1 cut(s) 325
PinAI ACCGGT 1 cut(s) 433
PkrI GCNGC 4 cut(s) 98, 367, 581, 602
PleI GAGTC 3 cut(s) 99, 603, 789
PpsI GAGTC 3 cut(s) 99, 603, 789
PscI ACATGT 1 cut(s) 150
PshBI ATTAAT 1 cut(s) 891
Psp6I CCWGG 2 cut(s) 721, 757
PspFI CCCAGC 1 cut(s) 119
PspGI CCWGG 2 cut(s) 721, 757
PspN4I GGNNCC 2 cut(s) 383, 698
PspPI GGNCC 2 cut(s) 40, 196
PstI CTGCAG 1 cut(s) 464
RsaI GTAC 1 cut(s) 155
RsaNI GTAC 1 cut(s) 154
SalI GTCGAC 1 cut(s) 185
SapI GCTCTTC 1 cut(s) 621
SaqAI TTAA 1 cut(s) 891
SatI GCNGC 4 cut(s) 97, 366, 580, 601
Sau3AI GATC 3 cut(s) 135, 171, 676
Sau96I GGNCC 2 cut(s) 40, 196
SbfI CCTGCAGG 1 cut(s) 464
SchI GAGTC 3 cut(s) 99, 604, 790
ScrFI CCNGG 5 cut(s) 179, 180, 647, 723, 759
SdaI CCTGCAGG 1 cut(s) 464
SetI ASST 9 cut(s) 312, 387, 461, 519, 563, 623, 665, 695, 870
SfaNI GCATC 2 cut(s) 210, 622
SfcI CTRYAG 1 cut(s) 460
Sfr274I CTCGAG 1 cut(s) 260
SgrAI CRCCGGYG 1 cut(s) 433
SgrDI CGTCGACG 1 cut(s) 185
SinI GGWCC 1 cut(s) 40
SlaI CTCGAG 1 cut(s) 260
SmaI CCCGGG 1 cut(s) 180
SmlI CTYRAG 1 cut(s) 260
SmoI CTYRAG 1 cut(s) 260
SphI GCATGC 1 cut(s) 902
Sse8387I CCTGCAGG 1 cut(s) 464
Sse9I AATT 5 cut(s) 69, 505, 536, 548, 819
SsiI CCGC 4 cut(s) 5, 94, 214, 580
SspI AATATT 1 cut(s) 874
SspMI CTAG 2 cut(s) 311, 861
StyD4I CCNGG 5 cut(s) 177, 178, 645, 721, 757
TaaI ACNGT 3 cut(s) 491, 641, 715
TaqI TCGA 6 cut(s) 20, 186, 207, 261, 586, 727
TaqII GACCGA 2 cut(s) 57, 894
TasI AATT 5 cut(s) 69, 505, 536, 548, 819
TauI GCSGC 1 cut(s) 582
Tru1I TTAA 1 cut(s) 891
Tru9I TTAA 1 cut(s) 891
TscAI CASTG 1 cut(s) 833
TseFI GTSAC 1 cut(s) 436
TseI GCWGC 3 cut(s) 96, 365, 600
Tsp45I GTSAC 1 cut(s) 436
TspDTI ATGAA 2 cut(s) 639, 867
TspGWI ACGGA 2 cut(s) 47, 437
TspMI CCCGGG 1 cut(s) 178
TspRI CASTG 1 cut(s) 833
Van91I CCANNNNNTGG 1 cut(s) 325
VpaK11BI GGWCC 1 cut(s) 40
VspI ATTAAT 1 cut(s) 891
XceI RCATGY 4 cut(s) 154, 365, 486, 902
XhoI CTCGAG 1 cut(s) 260
XmaI CCCGGG 1 cut(s) 178
XmiI GTMKAC 1 cut(s) 186
XspI CTAG 2 cut(s) 311, 861
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.