RchiOBHm_Chr2g0136531

3'-UTR-mediated mRNA destabilization

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0006416
Physical Location & Seq
Reverse (-)
53896200 .. 53898816
2617 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ50732

Sequence Viewer

Length: 822 bp
ATGAGTAATCTTCAATCAACCTGCCAATTCTTCACTCCATTTCCGAGAGAGGGTCAAGAATTCGAAGCTGTATCGGACACTGAACCCCACCAAGCTTTCAAGAAACCCAGAGTCTCTAAGGTTGGGTCAGACTCGATGGTTATTGAGAGAAGATATAAGTGGTTGCATTACAAGACCCGACTGTGCAATAACTTCAAACGGGGTCGTTGCCTTTATGGTGAGGCGTGTCTCTATGCTCACGGCATTGAAGAAATCCGCAACACTTTGGGTAGTTCGGCGAATGAGAAGGGCATGTTGGGTAGGACTGAGTATGCTCGTCACAGAACTTGTGATGAACTTCGACTTTGCAAGTTGTTCTTGAATGAGGGGAAATGCACATATGGAGAGAAATGCCGCTTTCGTCATGTGATTCCGAAAAGTATCAGAGATGAGTCAGTGATCATTTTGACTAGTGGGTCTAAAGGGTCTCAAATTAGTGGCTCTGGGCAATTTGGGGGCAAGAGGTCTTTGGGTTTGGATGTTGACACTAATGGAGTGAGTGGAGGCAGGCATTTTAGGCAACAGAGCTCTGTTGCAGCTGGAAGAGGGATGCTGAGTAATACCTGCATGGCTAGTGGAAGCTTTGCTCATGGACATGCCGTGCTCAGGAAGCTCTGTGGCTACACTACCAGGGAGACTAAACATTTAAAGACTTTTACTACTTCTAGGGAATTGCAAGTTACGGACGGCAACTTCAACTGGAATGAACTTGAGAAAATGAGTCGCATCTATGCTGATTGGATTGAAGAAATTCCTCTTGTACATAGGAAGATGGAGTTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04218 map04218
Pfam Domains
Protein Families
KH_1 W2 zf-CCCH zf-CCCH_2

Protein Analysis

273

Amino Acids

31.0

Weight (kDa)

9.37

Isoelectric Point (pI)

47.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH PF00642 57 - 81 6.6e-07 Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L PF25585 114 - 135 6e-06 DUS3L CCCH zinc finger domain
zf-CCCH_4 PF18044 114 - 135 6.4e-07 CCCH-type zinc finger
zf_CCCH_4 PF18345 116 - 135 6.1e-07 Zinc finger domain
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)
AasI GACNNNNNNGTC 1 cut(s) 454
Acc36I ACCTGC 2 cut(s) 29, 611
AciI CCGC 2 cut(s) 256, 394
AcsI RAATTY 2 cut(s) 59, 789
AfaI GTAC 1 cut(s) 801
AfiI CCNNNNNNNGG 2 cut(s) 50, 645
AgsI TTSAA 7 cut(s) 14, 100, 196, 248, 361, 736, 785
AhlI ACTAGT 1 cut(s) 449
AjnI CCWGG 1 cut(s) 668
AjuI GAANNNNNNNTTGG 2 cut(s) 278, 310
AluBI AGCT 6 cut(s) 68, 95, 567, 578, 621, 652
AluI AGCT 6 cut(s) 68, 95, 567, 578, 621, 652
Alw21I GWGCWC 2 cut(s) 569, 645
Alw26I GTCTC 4 cut(s) 118, 233, 471, 668
ApeKI GCWGC 1 cut(s) 575
ApoI RAATTY 2 cut(s) 59, 789
Asp700I GAANNNNTTC 1 cut(s) 789
AsuHPI GGTGA 1 cut(s) 230
AsuII TTCGAA 1 cut(s) 63
BanII GRGCYC 1 cut(s) 569
Bbv12I GWGCWC 2 cut(s) 569, 645
BbvI GCAGC 1 cut(s) 587
BccI CCATC 2 cut(s) 130, 805
BceAI ACGGC 3 cut(s) 256, 623, 742
BciT130I CCWGG 1 cut(s) 670
BclI TGATCA 1 cut(s) 438
BcoDI GTCTC 4 cut(s) 118, 233, 471, 668
BcuI ACTAGT 1 cut(s) 449
BfaI CTAG 3 cut(s) 450, 612, 705
BfuAI ACCTGC 2 cut(s) 29, 611
BisI GCNGC 2 cut(s) 394, 576
BlsI GCNGC 2 cut(s) 395, 577
Bme1390I CCNGG 1 cut(s) 670
BmrFI CCNGG 1 cut(s) 670
BmsI GCATC 2 cut(s) 579, 774
Bpu10I CCTNAGC 1 cut(s) 644
Bpu14I TTCGAA 1 cut(s) 63
BpuEI CTTGAG 1 cut(s) 770
BsaI GGTCTC 1 cut(s) 471
BsaJI CCNNGG 1 cut(s) 669
Bsc4I CCNNNNNNNGG 2 cut(s) 50, 645
Bse1I ACTGG 1 cut(s) 743
BseBI CCWGG 1 cut(s) 670
BseDI CCNNGG 1 cut(s) 669
BseGI GGATG 2 cut(s) 523, 594
BseLI CCNNNNNNNGG 2 cut(s) 50, 645
BseMII CTCAG 3 cut(s) 297, 584, 658
BseNI ACTGG 1 cut(s) 743
BseXI GCAGC 1 cut(s) 587
BsiHKAI GWGCWC 2 cut(s) 569, 645
BslI CCNNNNNNNGG 2 cut(s) 50, 645
BsmAI GTCTC 4 cut(s) 118, 233, 471, 668
Bso31I GGTCTC 1 cut(s) 471
Bsp119I TTCGAA 1 cut(s) 63
Bsp1286I GDGCHC 2 cut(s) 569, 645
Bsp1407I TGTACA 1 cut(s) 799
Bsp143I GATC 1 cut(s) 438
BspACI CCGC 2 cut(s) 256, 394
BspCNI CTCAG 3 cut(s) 298, 585, 657
BspMI ACCTGC 2 cut(s) 29, 611
BspT104I TTCGAA 1 cut(s) 63
BspTNI GGTCTC 1 cut(s) 471
BsrGI TGTACA 1 cut(s) 799
BsrI ACTGG 1 cut(s) 743
BssECI CCNNGG 1 cut(s) 669
BssMI GATC 1 cut(s) 438
Bst2UI CCWGG 1 cut(s) 670
Bst4CI ACNGT 1 cut(s) 183
Bst6I CTCTTC 1 cut(s) 577
BstAUI TGTACA 1 cut(s) 799
BstBI TTCGAA 1 cut(s) 63
BstC8I GCNNGC 1 cut(s) 548
BstDEI CTNAG 4 cut(s) 117, 306, 593, 644
BstF5I GGATG 2 cut(s) 523, 594
BstKTI GATC 1 cut(s) 441
BstMAI GTCTC 4 cut(s) 118, 233, 471, 668
BstMBI GATC 1 cut(s) 438
BstMWI GCNNNNNNNGC 2 cut(s) 556, 649
BstNI CCWGG 1 cut(s) 670
BstNSI RCATGY 2 cut(s) 295, 638
BstSCI CCNGG 1 cut(s) 668
BstV1I GCAGC 1 cut(s) 587
BtsCI GGATG 2 cut(s) 523, 594
BtsIMutI CAGTG 2 cut(s) 78, 441
BveI ACCTGC 2 cut(s) 29, 611
Cac8I GCNNGC 1 cut(s) 548
Csp6I GTAC 1 cut(s) 800
CviAII CATG 5 cut(s) 292, 404, 607, 629, 635
CviJI RGCY 9 cut(s) 68, 95, 480, 567, 578, 611, 621, 652, 660
CviKI_1 RGCY 9 cut(s) 68, 95, 480, 567, 578, 611, 621, 652, 660
CviQI GTAC 1 cut(s) 800
DdeI CTNAG 4 cut(s) 117, 306, 593, 644
DpnI GATC 1 cut(s) 440
DpnII GATC 1 cut(s) 438
DraI TTTAAA 1 cut(s) 687
DrdI GACNNNNNNGTC 1 cut(s) 454
DseDI GACNNNNNNGTC 1 cut(s) 454
Eam1104I CTCTTC 1 cut(s) 577
EarI CTCTTC 1 cut(s) 577
Ecl136II GAGCTC 1 cut(s) 567
Eco24I GRGCYC 1 cut(s) 569
Eco31I GGTCTC 1 cut(s) 471
Eco53kI GAGCTC 1 cut(s) 567
EcoICRI GAGCTC 1 cut(s) 567
EcoRI GAATTC 1 cut(s) 59
EcoRII CCWGG 1 cut(s) 668
EcoT38I GRGCYC 1 cut(s) 569
FaeI CATG 5 cut(s) 295, 407, 610, 632, 638
FalI AAGNNNNNCTT 2 cut(s) 341, 373
FatI CATG 5 cut(s) 291, 403, 606, 628, 634
FauNDI CATATG 1 cut(s) 379
FbaI TGATCA 1 cut(s) 438
Fnu4HI GCNGC 2 cut(s) 394, 576
FokI GGATG 2 cut(s) 530, 601
FriOI GRGCYC 1 cut(s) 569
Fsp4HI GCNGC 2 cut(s) 394, 576
FspBI CTAG 3 cut(s) 450, 612, 705
GluI GCNGC 2 cut(s) 394, 576
Hin1II CATG 5 cut(s) 295, 407, 610, 632, 638
HincII GTYRAC 1 cut(s) 523
HindII GTYRAC 1 cut(s) 523
HindIII AAGCTT 2 cut(s) 93, 619
HinfI GANTC 5 cut(s) 111, 131, 409, 431, 760
HphI GGTGA 1 cut(s) 230
Hpy166II GTNNAC 1 cut(s) 523
Hpy188I TCNGA 6 cut(s) 45, 76, 130, 414, 425, 821
Hpy188III TCNNGA 4 cut(s) 56, 100, 358, 646
Hpy8I GTNNAC 1 cut(s) 523
HpyAV CCTTC 1 cut(s) 280
HpyCH4III ACNGT 1 cut(s) 183
HpyCH4V TGCA 7 cut(s) 166, 186, 348, 375, 575, 606, 715
HpyF10VI GCNNNNNNNGC 2 cut(s) 556, 649
HpyF3I CTNAG 4 cut(s) 117, 306, 593, 644
Hsp92II CATG 5 cut(s) 295, 407, 610, 632, 638
Ksp22I TGATCA 1 cut(s) 438
Kzo9I GATC 1 cut(s) 438
Lsp1109I GCAGC 1 cut(s) 587
LweI GCATC 2 cut(s) 579, 774
MaeI CTAG 3 cut(s) 450, 612, 705
MaeIII GTNAC 2 cut(s) 317, 718
MalI GATC 1 cut(s) 440
MboI GATC 1 cut(s) 438
MboII GAAGA 6 cut(s) 22, 162, 260, 594, 797, 820
MhlI GDGCHC 2 cut(s) 569, 645
MluCI AATT 6 cut(s) 26, 59, 471, 488, 710, 789
MlyI GAGTC 4 cut(s) 120, 125, 440, 769
MnlI CCTC 7 cut(s) 43, 214, 358, 495, 536, 578, 804
MroXI GAANNNNTTC 1 cut(s) 789
MseI TTAA 1 cut(s) 686
MslI CAYNNNNRTG 1 cut(s) 633
MspA1I CMGCKG 1 cut(s) 578
MspR9I CCNGG 1 cut(s) 670
MvaI CCWGG 1 cut(s) 670
MwoI GCNNNNNNNGC 2 cut(s) 556, 649
NdeI CATATG 1 cut(s) 379
NdeII GATC 1 cut(s) 438
NlaIII CATG 5 cut(s) 295, 407, 610, 632, 638
NmuCI GTSAC 1 cut(s) 317
NspI RCATGY 2 cut(s) 295, 638
NspV TTCGAA 1 cut(s) 63
PdmI GAANNNNTTC 1 cut(s) 789
PfeI GAWTC 1 cut(s) 409
PkrI GCNGC 2 cut(s) 395, 577
PleI GAGTC 4 cut(s) 119, 125, 439, 768
PpsI GAGTC 4 cut(s) 119, 125, 439, 768
Psp124BI GAGCTC 1 cut(s) 569
Psp6I CCWGG 1 cut(s) 668
PspGI CCWGG 1 cut(s) 668
PvuII CAGCTG 1 cut(s) 578
RsaI GTAC 1 cut(s) 801
RsaNI GTAC 1 cut(s) 800
RseI CAYNNNNRTG 1 cut(s) 633
SacI GAGCTC 1 cut(s) 569
SaqAI TTAA 1 cut(s) 686
SatI GCNGC 2 cut(s) 394, 576
Sau3AI GATC 1 cut(s) 438
SchI GAGTC 4 cut(s) 120, 125, 440, 769
ScrFI CCNGG 1 cut(s) 670
SduI GDGCHC 2 cut(s) 569, 645
SfaNI GCATC 2 cut(s) 579, 774
SfuI TTCGAA 1 cut(s) 63
SmiMI CAYNNNNRTG 1 cut(s) 633
SmlI CTYRAG 1 cut(s) 749
SmoI CTYRAG 1 cut(s) 749
SpeI ACTAGT 1 cut(s) 449
Sse9I AATT 6 cut(s) 26, 59, 471, 488, 710, 789
SsiI CCGC 2 cut(s) 256, 394
SspMI CTAG 3 cut(s) 450, 612, 705
SstI GAGCTC 1 cut(s) 569
StyD4I CCNGG 1 cut(s) 668
TaaI ACNGT 1 cut(s) 183
TaqI TCGA 3 cut(s) 63, 134, 340
TasI AATT 6 cut(s) 26, 59, 471, 488, 710, 789
TatI WGTACW 1 cut(s) 799
TauI GCSGC 1 cut(s) 396
TfiI GAWTC 1 cut(s) 409
Tru1I TTAA 1 cut(s) 686
Tru9I TTAA 1 cut(s) 686
TscAI CASTG 2 cut(s) 85, 441
TseFI GTSAC 1 cut(s) 317
TseI GCWGC 1 cut(s) 575
Tsp45I GTSAC 1 cut(s) 317
TspDTI ATGAA 2 cut(s) 348, 759
TspGWI ACGGA 1 cut(s) 737
TspRI CASTG 2 cut(s) 85, 441
XapI RAATTY 2 cut(s) 59, 789
XceI RCATGY 2 cut(s) 295, 638
XmnI GAANNNNTTC 1 cut(s) 789
XspI CTAG 3 cut(s) 450, 612, 705
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.