RchiOBHm_Chr1g0331341

TRAF-type zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0004794
Physical Location & Seq
Reverse (-)
21155876 .. 21158176
2301 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ56037

Sequence Viewer

Length: 972 bp
ATGATGCAGGAATTGTCAGCCATCGATGACCTACCTGCGACTAATGTGGAACTGGAACCGGAAAAGATTGAAGATGGGAAAGATGGAGGTCCTTCATTCCACTGTAAACTTTACAGCAAAGAATTAGTCCACAAGATAGCTCAGGTTTTCATTCCTGGATTAGCTACTGCATGTGTTGATAACACATCTGGTGATATCTTCAAGACCCCTGCTTCTGTGGCCGCCGATGTGAGAAAGGAAATGGTGGAGTATATCACTCAAAGAAGTGAGAATTTTGTTGCAGAATCTGTTATCCTAGAAGGGGGCCAGGATGGACAAGTATCTGATCATCCCTATGACATAATTTCTGATTTTGTTGATGACTTTGCAAGTTCCAAGAGAAATTTGTTTAGTCGGGTTTCGGGATGGCTGCTGAGTGAAAAGAGAGAAGATAAAATAGATGATTTTGTTCAAGAGATGGAAATAAATGGGTTTTGGTTGGTTGATAAAAGAGAAACAATAGCACAGAATTTGCTAAAGAATGTCGACCTTAAGAATGAGCATCACTGCAATATGAAATTTCACACTCCAGAGGAGCTTGAAGCGCATGTTCTAAAGTGTAGCTATAGATCTATGAGTTGCATACATGAAGGATGTAATGTCATATTTTGTGCAAGTCAGGTGGATAAACATGACGCAGTTTGCCCCTTCAAGATAATTCCATGCGAACAAAACTGCTCCGACATGATCATGAGACGTGAAATGGACAGACATTGTATTACCATCTGTCCAATGAAGCTTGTTAGTTGTCCGTTCTATGCAGTGGGTTGTCAATCCCCGGTACCACATTGTAAGCTTGAGCAGCATCGTTCAGATGATCTCCATTCTCACATGCTGTTTGTTCTACAAAGTATTCATAAGGAAGCATCTATGGAAGATCTGAAAAGAAGGCTGGAGCAACTAAAAGACATTGTGATACCACTTATTTGGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00130 map00130
Pfam Domains
Protein Families
zf-TRAF

Protein Analysis

323

Amino Acids

36.86

Weight (kDa)

5.24

Isoelectric Point (pI)

44.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-TRAF PF02176 224 - 282 2.9e-11 TRAF-type zinc finger
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 43
Acc65I GGTACC 1 cut(s) 820
AccB1I GGYRCC 1 cut(s) 820
AccI GTMKAC 1 cut(s) 525
AciI CCGC 1 cut(s) 222
AcoI YGGCCR 1 cut(s) 219
AcsI RAATTY 4 cut(s) 271, 382, 508, 557
AfaI GTAC 1 cut(s) 822
AfiI CCNNNNNNNGG 1 cut(s) 301
AflII CTTAAG 1 cut(s) 530
AgsI TTSAA 5 cut(s) 71, 202, 452, 581, 691
AjiI CACGTC 1 cut(s) 737
AjnI CCWGG 2 cut(s) 154, 306
AluBI AGCT 6 cut(s) 140, 164, 577, 603, 778, 835
AluI AGCT 6 cut(s) 140, 164, 577, 603, 778, 835
Alw26I GTCTC 1 cut(s) 727
AlwNI CAGNNNCTG 1 cut(s) 287
AoxI GGCC 2 cut(s) 219, 304
ApeKI GCWGC 2 cut(s) 409, 841
ApoI RAATTY 4 cut(s) 271, 382, 508, 557
ArsI GACNNNNNNTTYG 2 cut(s) 111, 143
Asp718I GGTACC 1 cut(s) 820
AspLEI GCGC 1 cut(s) 586
AspS9I GGNCC 2 cut(s) 89, 304
AsuC2I CCSGG 1 cut(s) 818
AsuHPI GGTGA 1 cut(s) 203
AvaII GGWCC 1 cut(s) 89
BanI GGYRCC 1 cut(s) 820
BbvI GCAGC 2 cut(s) 396, 853
BccI CCATC 7 cut(s) 29, 68, 77, 305, 399, 451, 770
BciT130I CCWGG 2 cut(s) 156, 308
BclI TGATCA 2 cut(s) 325, 726
BcnI CCSGG 1 cut(s) 818
BcoDI GTCTC 1 cut(s) 727
BfaI CTAG 1 cut(s) 296
BfmI CTRYAG 1 cut(s) 604
BfrI CTTAAG 1 cut(s) 530
BfuAI ACCTGC 1 cut(s) 43
BglII AGATCT 2 cut(s) 608, 916
BisI GCNGC 3 cut(s) 222, 410, 842
BlsI GCNGC 3 cut(s) 223, 411, 843
Bme1390I CCNGG 3 cut(s) 156, 308, 818
Bme18I GGWCC 1 cut(s) 89
BmgBI CACGTC 1 cut(s) 737
BmgT120I GGNCC 2 cut(s) 89, 304
BmiI GGNNCC 3 cut(s) 57, 305, 822
BmrFI CCNGG 3 cut(s) 156, 308, 818
BmsI GCATC 3 cut(s) 550, 853, 914
BpmI CTGGAG 2 cut(s) 552, 953
Bpu10I CCTNAGC 1 cut(s) 141
BpuEI CTTGAG 1 cut(s) 857
BpuMI CCSGG 1 cut(s) 818
Bsa29I ATCGAT 1 cut(s) 24
BsaJI CCNNGG 1 cut(s) 816
BsaWI WCCGGW 1 cut(s) 58
Bsc4I CCNNNNNNNGG 1 cut(s) 301
Bse1I ACTGG 1 cut(s) 57
BseBI CCWGG 2 cut(s) 156, 308
BseCI ATCGAT 1 cut(s) 24
BseDI CCNNGG 1 cut(s) 816
BseGI GGATG 4 cut(s) 316, 328, 410, 638
BseLI CCNNNNNNNGG 1 cut(s) 301
BseMII CTCAG 2 cut(s) 155, 404
BseNI ACTGG 1 cut(s) 57
BseRI GAGGAG 1 cut(s) 587
BseXI GCAGC 2 cut(s) 396, 853
BshFI GGCC 2 cut(s) 221, 306
BshNI GGYRCC 1 cut(s) 820
BshVI ATCGAT 1 cut(s) 24
BsiSI CCGG 2 cut(s) 59, 818
BslI CCNNNNNNNGG 1 cut(s) 301
BsmAI GTCTC 1 cut(s) 727
BsmBI CGTCTC 1 cut(s) 727
BsnI GGCC 2 cut(s) 221, 306
Bsp143I GATC 5 cut(s) 325, 608, 726, 856, 916
BspACI CCGC 1 cut(s) 222
BspANI GGCC 2 cut(s) 221, 306
BspCNI CTCAG 2 cut(s) 154, 405
BspDI ATCGAT 1 cut(s) 24
BspHI TCATGA 1 cut(s) 729
BspLI GGNNCC 3 cut(s) 57, 305, 822
BspMI ACCTGC 1 cut(s) 43
BspT107I GGYRCC 1 cut(s) 820
BspTI CTTAAG 1 cut(s) 530
BsrI ACTGG 1 cut(s) 57
BssECI CCNNGG 1 cut(s) 816
BssMI GATC 5 cut(s) 325, 608, 726, 856, 916
Bst2UI CCWGG 2 cut(s) 156, 308
Bst4CI ACNGT 1 cut(s) 104
BstAFI CTTAAG 1 cut(s) 530
BstDEI CTNAG 2 cut(s) 141, 413
BstF5I GGATG 4 cut(s) 316, 328, 410, 638
BstHHI GCGC 1 cut(s) 586
BstKTI GATC 5 cut(s) 328, 611, 729, 859, 919
BstMAI GTCTC 1 cut(s) 727
BstMBI GATC 5 cut(s) 325, 608, 726, 856, 916
BstMWI GCNNNNNNNGC 3 cut(s) 218, 583, 841
BstNI CCWGG 2 cut(s) 156, 308
BstNSI RCATGY 3 cut(s) 174, 590, 874
BstSCI CCNGG 3 cut(s) 154, 306, 816
BstSFI CTRYAG 1 cut(s) 604
BstV1I GCAGC 2 cut(s) 396, 853
BstX2I RGATCY 2 cut(s) 608, 916
BstXI CCANNNNNNTGG 1 cut(s) 966
BstYI RGATCY 2 cut(s) 608, 916
Bsu15I ATCGAT 1 cut(s) 24
BsuRI GGCC 2 cut(s) 221, 306
BsuTUI ATCGAT 1 cut(s) 24
BtrI CACGTC 1 cut(s) 737
BtsCI GGATG 4 cut(s) 316, 328, 410, 638
BtsI GCAGTG 2 cut(s) 544, 807
BtsIMutI CAGTG 3 cut(s) 100, 544, 807
BveI ACCTGC 1 cut(s) 43
CaiI CAGNNNCTG 1 cut(s) 287
CciI TCATGA 1 cut(s) 729
CfoI GCGC 1 cut(s) 586
Cfr13I GGNCC 2 cut(s) 89, 304
ClaI ATCGAT 1 cut(s) 24
CseI GACGC 1 cut(s) 683
Csp6I GTAC 1 cut(s) 821
CspCI CAANNNNNGTGG 2 cut(s) 642, 677
CviAII CATG 8 cut(s) 171, 587, 626, 671, 702, 724, 730, 871
CviQI GTAC 1 cut(s) 821
DdeI CTNAG 2 cut(s) 141, 413
DpnI GATC 5 cut(s) 327, 610, 728, 858, 918
DpnII GATC 5 cut(s) 325, 608, 726, 856, 916
EaeI YGGCCR 1 cut(s) 219
Eco32I GATATC 1 cut(s) 196
Eco47I GGWCC 1 cut(s) 89
EcoO109I RGGNCCY 1 cut(s) 89
EcoRII CCWGG 2 cut(s) 154, 306
EcoRV GATATC 1 cut(s) 196
Esp3I CGTCTC 1 cut(s) 727
FaeI CATG 8 cut(s) 174, 590, 629, 674, 705, 727, 733, 874
FatI CATG 8 cut(s) 170, 586, 625, 670, 701, 723, 729, 870
FbaI TGATCA 2 cut(s) 325, 726
FblI GTMKAC 1 cut(s) 525
Fnu4HI GCNGC 3 cut(s) 222, 410, 842
FokI GGATG 4 cut(s) 315, 323, 417, 645
Fsp4HI GCNGC 3 cut(s) 222, 410, 842
FspBI CTAG 1 cut(s) 296
GlaI GCGC 1 cut(s) 585
GluI GCNGC 3 cut(s) 222, 410, 842
GsuI CTGGAG 2 cut(s) 552, 953
HaeIII GGCC 2 cut(s) 221, 306
HapII CCGG 2 cut(s) 59, 818
HgaI GACGC 1 cut(s) 683
HhaI GCGC 1 cut(s) 586
Hin1II CATG 8 cut(s) 174, 590, 629, 674, 705, 727, 733, 874
Hin6I GCGC 1 cut(s) 584
HinP1I GCGC 1 cut(s) 584
HincII GTYRAC 1 cut(s) 526
HindII GTYRAC 1 cut(s) 526
HindIII AAGCTT 2 cut(s) 776, 833
HinfI GANTC 1 cut(s) 284
HpaII CCGG 2 cut(s) 59, 818
HphI GGTGA 1 cut(s) 203
Hpy166II GTNNAC 3 cut(s) 107, 130, 526
Hpy188I TCNGA 5 cut(s) 325, 349, 721, 853, 921
Hpy188III TCNNGA 6 cut(s) 202, 402, 452, 569, 691, 730
Hpy8I GTNNAC 3 cut(s) 107, 130, 526
HpyAV CCTTC 5 cut(s) 102, 293, 623, 697, 921
HpyCH4III ACNGT 1 cut(s) 104
HpyCH4IV ACGT 1 cut(s) 736
HpyCH4V TGCA 8 cut(s) 7, 170, 281, 368, 549, 621, 653, 800
HpyF10VI GCNNNNNNNGC 3 cut(s) 218, 583, 841
HpyF3I CTNAG 2 cut(s) 141, 413
HpySE526I ACGT 1 cut(s) 736
Hsp92II CATG 8 cut(s) 174, 590, 629, 674, 705, 727, 733, 874
HspAI GCGC 1 cut(s) 584
KpnI GGTACC 1 cut(s) 824
Ksp22I TGATCA 2 cut(s) 325, 726
Kzo9I GATC 5 cut(s) 325, 608, 726, 856, 916
LmnI GCTCC 3 cut(s) 574, 722, 934
Lsp1109I GCAGC 2 cut(s) 396, 853
LweI GCATC 3 cut(s) 550, 853, 914
MaeI CTAG 1 cut(s) 296
MaeII ACGT 1 cut(s) 736
MalI GATC 5 cut(s) 327, 610, 728, 858, 918
MboI GATC 5 cut(s) 325, 608, 726, 856, 916
MboII GAAGA 4 cut(s) 83, 190, 440, 926
MflI RGATCY 2 cut(s) 608, 916
MluCI AATT 8 cut(s) 11, 122, 271, 342, 382, 508, 557, 696
MmeI TCCRAC 1 cut(s) 744
MnlI CCTC 2 cut(s) 80, 565
MseI TTAA 1 cut(s) 531
MslI CAYNNNNRTG 2 cut(s) 333, 728
MspCI CTTAAG 1 cut(s) 530
MspI CCGG 2 cut(s) 59, 818
MspR9I CCNGG 3 cut(s) 156, 308, 818
MvaI CCWGG 2 cut(s) 156, 308
MwoI GCNNNNNNNGC 3 cut(s) 218, 583, 841
NciI CCSGG 1 cut(s) 818
NdeII GATC 5 cut(s) 325, 608, 726, 856, 916
NlaIII CATG 8 cut(s) 174, 590, 629, 674, 705, 727, 733, 874
NlaIV GGNNCC 3 cut(s) 57, 305, 822
NspI RCATGY 3 cut(s) 174, 590, 874
PagI TCATGA 1 cut(s) 729
PfeI GAWTC 1 cut(s) 284
PfoI TCCNGGA 1 cut(s) 154
PkrI GCNGC 3 cut(s) 223, 411, 843
PpuMI RGGWCCY 1 cut(s) 89
Psp5II RGGWCCY 1 cut(s) 89
Psp6I CCWGG 2 cut(s) 154, 306
PspGI CCWGG 2 cut(s) 154, 306
PspN4I GGNNCC 3 cut(s) 57, 305, 822
PspPI GGNCC 2 cut(s) 89, 304
PspPPI RGGWCCY 1 cut(s) 89
PstNI CAGNNNCTG 1 cut(s) 287
PsuI RGATCY 2 cut(s) 608, 916
RsaI GTAC 1 cut(s) 822
RsaNI GTAC 1 cut(s) 821
RseI CAYNNNNRTG 2 cut(s) 333, 728
SalI GTCGAC 1 cut(s) 524
SaqAI TTAA 1 cut(s) 531
SatI GCNGC 3 cut(s) 222, 410, 842
Sau3AI GATC 5 cut(s) 325, 608, 726, 856, 916
Sau96I GGNCC 2 cut(s) 89, 304
ScrFI CCNGG 3 cut(s) 156, 308, 818
SfaNI GCATC 3 cut(s) 550, 853, 914
SfcI CTRYAG 1 cut(s) 604
SinI GGWCC 1 cut(s) 89
SmiMI CAYNNNNRTG 2 cut(s) 333, 728
SmlI CTYRAG 2 cut(s) 530, 836
SmoI CTYRAG 2 cut(s) 530, 836
Sse9I AATT 8 cut(s) 11, 122, 271, 342, 382, 508, 557, 696
SsiI CCGC 1 cut(s) 222
SspMI CTAG 1 cut(s) 296
StyD4I CCNGG 3 cut(s) 154, 306, 816
TaaI ACNGT 1 cut(s) 104
TaiI ACGT 1 cut(s) 739
TaqI TCGA 2 cut(s) 24, 525
TasI AATT 8 cut(s) 11, 122, 271, 342, 382, 508, 557, 696
TauI GCSGC 1 cut(s) 224
TfiI GAWTC 1 cut(s) 284
Tru1I TTAA 1 cut(s) 531
Tru9I TTAA 1 cut(s) 531
TscAI CASTG 3 cut(s) 107, 551, 807
TseI GCWGC 2 cut(s) 409, 841
TspDTI ATGAA 6 cut(s) 84, 139, 569, 642, 788, 884
TspGWI ACGGA 1 cut(s) 780
TspRI CASTG 3 cut(s) 107, 551, 807
Vha464I CTTAAG 1 cut(s) 530
VpaK11BI GGWCC 1 cut(s) 89
XapI RAATTY 4 cut(s) 271, 382, 508, 557
XceI RCATGY 3 cut(s) 174, 590, 874
XmiI GTMKAC 1 cut(s) 525
XspI CTAG 1 cut(s) 296
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.