Rroxscaffold_3G00256310

YT521-B-like domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0002140
Physical Location & Seq
Reverse (-)
50669010 .. 50675360
6351 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00256310.1

Sequence Viewer

Length: 1065 bp
ATGTCGTGTGATACTGCAAAGGAAAATGCATCTGTAGTGGACTCATCTGTTACTGAAAGGAAAGAAGACATGGGGAATTCAGATGAGCCAGAGAGTTCAAGTCACAAAGTTCCCGAGGGGGTTTATCCATCTAGATCAGATGAAGTGGGGCACTCTCATGATCATGTTGGGGATTCACCTGCAAGGAAAAAGGGTAAATTGTATGGTACAAGATATTTCATCATTAAGAGTTTGTCTCATGAGAATATCCAACTATCGATTGAGAAAGAAATTTGGGCTACTCAAGTGATGAATGAACCAATTTTGGAAGATGCTTTTCATAATTCTGGTAAAGTAATTTTAATATTCAGTGTCAACATGAGTGGTTTCTTCCAAGGGTATGCACAAATGATGTCTTCTGTTGGATGGAGGCGAGACAATGTATGGAGTCAAGGAAGTAGTAGAAGTAATCCCTGGGGACGCAGTTTTAAGGTCAAATGGCTGCGGTTAAATGATCTGCCTTTCCAACAAACTCTTCATCTCAAGAATCCATTGAATGAGTACAAACCTGTTAAAATTAGCAGAGACTGCCAGGAGTTGTCTCCAGATGTTGGAGAAGCTCTCTGTGAGCTTCTTGATAAGCATAATGATCTAAACAGCCTGAATAGTAATCACATGGATGATTTTCCCTCAAAAAGGCCCTGCGTAGAGCCTCCATGTTCGGTAGGGGAAAAAGAGTATAATATGCCAGTGCATCTCTCATGGTCGCAAACTCCCATGCTCTATCCTTCCATGCTTTATCAACAACAGCCTGAAACAAAGAGATTTCATCTAGCGAATCAGAAATCTACTGATAGCCGGCCAGCTAGTGTTCTGACTGAGGATGATTTTCTTGAAATGTCGTATGAAGAATATCTGGAGGTCTATGGCAGAAGCAGGAAGGAACTATATCAGCCTGGTTCTAGATCACAGAAGTCATCCAGAAGTAAAATGCACGAGGATGATTTAAACTCAAGTTACGGCAGTAACCGCAGCTGCTCAAGGAAAAGAGCTCATCAGTCATCCCATAAGCAATCACAATGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
YTH

Protein Analysis

354

Amino Acids

40.53

Weight (kDa)

6.4

Isoelectric Point (pI)

68.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YTH PF04146 70 - 205 7.9e-50 YT521-B-like 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)
AarI CACCTGC 1 cut(s) 187
Acc36I ACCTGC 1 cut(s) 187
AccB7I CCANNNNNTGG 1 cut(s) 590
AciI CCGC 2 cut(s) 484, 1009
AcoI YGGCCR 1 cut(s) 839
AcsI RAATTY 2 cut(s) 76, 270
AfaI GTAC 2 cut(s) 208, 542
AfiI CCNNNNNNNGG 2 cut(s) 590, 675
AgsI TTSAA 3 cut(s) 99, 535, 875
AjnI CCWGG 3 cut(s) 452, 570, 934
AjuI GAANNNNNNNTTGG 2 cut(s) 498, 530
AluBI AGCT 5 cut(s) 599, 610, 845, 1014, 1031
AluI AGCT 5 cut(s) 599, 610, 845, 1014, 1031
Alw21I GWGCWC 1 cut(s) 1033
Alw26I GTCTC 4 cut(s) 240, 408, 558, 585
AlwNI CAGNNNCTG 1 cut(s) 567
Ama87I CYCGRG 1 cut(s) 113
AoxI GGCC 2 cut(s) 677, 839
ApeKI GCWGC 3 cut(s) 481, 1011, 1014
ApoI RAATTY 2 cut(s) 76, 270
AspS9I GGNCC 1 cut(s) 678
AsuHPI GGTGA 1 cut(s) 168
AvaI CYCGRG 1 cut(s) 113
BaeGI GKGCMC 1 cut(s) 153
BanII GRGCYC 1 cut(s) 1033
BauI CACGAG 1 cut(s) 974
BbsI GAAGAC 2 cut(s) 72, 387
Bbv12I GWGCWC 1 cut(s) 1033
BbvI GCAGC 3 cut(s) 468, 1001, 1023
BccI CCATC 2 cut(s) 136, 399
BceAI ACGGC 1 cut(s) 1015
BciT130I CCWGG 3 cut(s) 454, 572, 936
BclI TGATCA 1 cut(s) 160
BcoDI GTCTC 4 cut(s) 240, 408, 558, 585
BfaI CTAG 4 cut(s) 132, 812, 846, 942
BfmI CTRYAG 1 cut(s) 33
BfuAI ACCTGC 1 cut(s) 187
BisI GCNGC 3 cut(s) 482, 1012, 1015
BlsI GCNGC 3 cut(s) 483, 1013, 1016
Bme1390I CCNGG 3 cut(s) 454, 572, 936
BmeT110I CYCGRG 1 cut(s) 113
BmgT120I GGNCC 1 cut(s) 678
BmrFI CCNGG 3 cut(s) 454, 572, 936
BmsI GCATC 3 cut(s) 38, 301, 742
BpiI GAAGAC 2 cut(s) 72, 387
BplI GAGNNNNNCTC 4 cut(s) 220, 252, 585, 617
BpmI CTGGAG 2 cut(s) 567, 917
BpuEI CTTGAG 4 cut(s) 267, 506, 976, 1003
Bsa29I ATCGAT 1 cut(s) 257
BsaJI CCNNGG 4 cut(s) 114, 373, 452, 453
Bsc4I CCNNNNNNNGG 2 cut(s) 590, 675
Bse118I RCCGGY 1 cut(s) 837
Bse1I ACTGG 1 cut(s) 728
BseBI CCWGG 3 cut(s) 454, 572, 936
BseCI ATCGAT 1 cut(s) 257
BseDI CCNNGG 4 cut(s) 114, 373, 452, 453
BseGI GGATG 6 cut(s) 410, 664, 868, 956, 985, 1040
BseLI CCNNNNNNNGG 2 cut(s) 590, 675
BseMII CTCAG 1 cut(s) 849
BseNI ACTGG 1 cut(s) 728
BseSI GKGCMC 1 cut(s) 153
BseXI GCAGC 3 cut(s) 468, 1001, 1023
BshFI GGCC 2 cut(s) 679, 841
BshVI ATCGAT 1 cut(s) 257
BsiHKAI GWGCWC 1 cut(s) 1033
BsiHKCI CYCGRG 1 cut(s) 113
BsiSI CCGG 1 cut(s) 838
BslFI GGGAC 1 cut(s) 471
BslI CCNNNNNNNGG 2 cut(s) 590, 675
BsmAI GTCTC 4 cut(s) 240, 408, 558, 585
BsmFI GGGAC 1 cut(s) 471
BsnI GGCC 2 cut(s) 679, 841
BsoBI CYCGRG 1 cut(s) 113
Bsp1286I GDGCHC 2 cut(s) 153, 1033
Bsp143I GATC 5 cut(s) 134, 160, 493, 628, 944
BspACI CCGC 2 cut(s) 484, 1009
BspANI GGCC 2 cut(s) 679, 841
BspCNI CTCAG 1 cut(s) 850
BspDI ATCGAT 1 cut(s) 257
BspHI TCATGA 2 cut(s) 157, 238
BspMI ACCTGC 1 cut(s) 187
BsrFI RCCGGY 1 cut(s) 837
BsrI ACTGG 1 cut(s) 728
BssAI RCCGGY 1 cut(s) 837
BssECI CCNNGG 4 cut(s) 114, 373, 452, 453
BssMI GATC 5 cut(s) 134, 160, 493, 628, 944
BssSI CACGAG 1 cut(s) 974
BssT1I CCWWGG 1 cut(s) 373
Bst2BI CACGAG 1 cut(s) 974
Bst2UI CCWGG 3 cut(s) 454, 572, 936
Bst6I CTCTTC 1 cut(s) 519
BstAPI GCANNNNNTGC 1 cut(s) 567
BstC8I GCNNGC 2 cut(s) 839, 843
BstDEI CTNAG 1 cut(s) 858
BstENI CCTNNNNNAGG 1 cut(s) 673
BstF5I GGATG 6 cut(s) 410, 664, 868, 956, 985, 1040
BstKTI GATC 5 cut(s) 137, 163, 496, 631, 947
BstMAI GTCTC 4 cut(s) 240, 408, 558, 585
BstMBI GATC 5 cut(s) 134, 160, 493, 628, 944
BstMWI GCNNNNNNNGC 2 cut(s) 567, 1008
BstNI CCWGG 3 cut(s) 454, 572, 936
BstSCI CCNGG 3 cut(s) 452, 570, 934
BstSFI CTRYAG 1 cut(s) 33
BstSLI GKGCMC 1 cut(s) 153
BstV1I GCAGC 3 cut(s) 468, 1001, 1023
BstV2I GAAGAC 2 cut(s) 72, 387
Bsu15I ATCGAT 1 cut(s) 257
BsuRI GGCC 2 cut(s) 679, 841
BsuTUI ATCGAT 1 cut(s) 257
BtsCI GGATG 6 cut(s) 410, 664, 868, 956, 985, 1040
BtsIMutI CAGTG 2 cut(s) 355, 735
BveI ACCTGC 1 cut(s) 187
Cac8I GCNNGC 2 cut(s) 839, 843
CaiI CAGNNNCTG 1 cut(s) 567
CciI TCATGA 2 cut(s) 157, 238
Cfr10I RCCGGY 1 cut(s) 837
Cfr13I GGNCC 1 cut(s) 678
ClaI ATCGAT 1 cut(s) 257
CseI GACGC 1 cut(s) 468
Csp6I GTAC 2 cut(s) 207, 541
CspCI CAANNNNNGTGG 2 cut(s) 343, 378
CviQI GTAC 2 cut(s) 207, 541
DdeI CTNAG 1 cut(s) 858
DpnI GATC 5 cut(s) 136, 162, 495, 630, 946
DpnII GATC 5 cut(s) 134, 160, 493, 628, 944
DraI TTTAAA 1 cut(s) 987
EaeI YGGCCR 1 cut(s) 839
Eam1104I CTCTTC 1 cut(s) 519
EarI CTCTTC 1 cut(s) 519
Ecl136II GAGCTC 1 cut(s) 1031
Eco130I CCWWGG 1 cut(s) 373
Eco24I GRGCYC 1 cut(s) 1033
Eco53kI GAGCTC 1 cut(s) 1031
Eco88I CYCGRG 1 cut(s) 113
EcoICRI GAGCTC 1 cut(s) 1031
EcoNI CCTNNNNNAGG 1 cut(s) 673
EcoO109I RGGNCCY 1 cut(s) 678
EcoRI GAATTC 1 cut(s) 76
EcoRII CCWGG 3 cut(s) 452, 570, 934
EcoT14I CCWWGG 1 cut(s) 373
EcoT22I ATGCAT 1 cut(s) 31
EcoT38I GRGCYC 1 cut(s) 1033
ErhI CCWWGG 1 cut(s) 373
FaqI GGGAC 1 cut(s) 471
FbaI TGATCA 1 cut(s) 160
Fnu4HI GCNGC 3 cut(s) 482, 1012, 1015
FokI GGATG 6 cut(s) 417, 671, 875, 943, 992, 1027
FriOI GRGCYC 1 cut(s) 1033
Fsp4HI GCNGC 3 cut(s) 482, 1012, 1015
FspBI CTAG 4 cut(s) 132, 812, 846, 942
GluI GCNGC 3 cut(s) 482, 1012, 1015
GsuI CTGGAG 2 cut(s) 567, 917
HaeIII GGCC 2 cut(s) 679, 841
HapII CCGG 1 cut(s) 838
HgaI GACGC 1 cut(s) 468
HincII GTYRAC 1 cut(s) 355
HindII GTYRAC 1 cut(s) 355
HinfI GANTC 5 cut(s) 41, 173, 427, 526, 817
HpaII CCGG 1 cut(s) 838
HphI GGTGA 1 cut(s) 168
Hpy166II GTNNAC 2 cut(s) 40, 355
Hpy188I TCNGA 4 cut(s) 82, 139, 822, 855
Hpy8I GTNNAC 2 cut(s) 40, 355
HpyAV CCTTC 2 cut(s) 777, 913
HpyCH4V TGCA 6 cut(s) 17, 29, 182, 383, 733, 973
HpyF10VI GCNNNNNNNGC 2 cut(s) 567, 1008
HpyF3I CTNAG 1 cut(s) 858
KroI GCCGGC 1 cut(s) 837
KroNI GCCGGC 1 cut(s) 839
Ksp22I TGATCA 1 cut(s) 160
Kzo9I GATC 5 cut(s) 134, 160, 493, 628, 944
Lsp1109I GCAGC 3 cut(s) 468, 1001, 1023
LweI GCATC 3 cut(s) 38, 301, 742
MaeI CTAG 4 cut(s) 132, 812, 846, 942
MaeIII GTNAC 4 cut(s) 49, 101, 995, 1004
MalI GATC 5 cut(s) 136, 162, 495, 630, 946
MboI GATC 5 cut(s) 134, 160, 493, 628, 944
MboII GAAGA 6 cut(s) 77, 320, 361, 387, 506, 899
MhlI GDGCHC 2 cut(s) 153, 1033
MluCI AATT 7 cut(s) 76, 197, 270, 300, 322, 336, 555
MlyI GAGTC 2 cut(s) 35, 436
MmeI TCCRAC 4 cut(s) 274, 382, 529, 571
MnlI CCTC 7 cut(s) 109, 402, 679, 702, 853, 892, 970
Mph1103I ATGCAT 1 cut(s) 31
MroNI GCCGGC 1 cut(s) 837
MseI TTAA 6 cut(s) 225, 341, 468, 488, 552, 986
MslI CAYNNNNRTG 4 cut(s) 156, 162, 657, 978
MspA1I CMGCKG 1 cut(s) 1014
MspI CCGG 1 cut(s) 838
MspR9I CCNGG 3 cut(s) 454, 572, 936
MvaI CCWGG 3 cut(s) 454, 572, 936
MwoI GCNNNNNNNGC 2 cut(s) 567, 1008
NaeI GCCGGC 1 cut(s) 839
NdeII GATC 5 cut(s) 134, 160, 493, 628, 944
NgoMIV GCCGGC 1 cut(s) 837
NmuCI GTSAC 1 cut(s) 101
NsiI ATGCAT 1 cut(s) 31
PagI TCATGA 2 cut(s) 157, 238
PaqCI CACCTGC 1 cut(s) 187
PasI CCCWGGG 1 cut(s) 453
PdiI GCCGGC 1 cut(s) 839
PfeI GAWTC 3 cut(s) 173, 526, 817
PflMI CCANNNNNTGG 1 cut(s) 590
PkrI GCNGC 3 cut(s) 483, 1013, 1016
PleI GAGTC 2 cut(s) 35, 435
PpsI GAGTC 2 cut(s) 35, 435
Psp124BI GAGCTC 1 cut(s) 1033
Psp6I CCWGG 3 cut(s) 452, 570, 934
PspGI CCWGG 3 cut(s) 452, 570, 934
PspPI GGNCC 1 cut(s) 678
PstNI CAGNNNCTG 1 cut(s) 567
PvuII CAGCTG 1 cut(s) 1014
RsaI GTAC 2 cut(s) 208, 542
RsaNI GTAC 2 cut(s) 207, 541
RseI CAYNNNNRTG 4 cut(s) 156, 162, 657, 978
SacI GAGCTC 1 cut(s) 1033
SaqAI TTAA 6 cut(s) 225, 341, 468, 488, 552, 986
SatI GCNGC 3 cut(s) 482, 1012, 1015
Sau3AI GATC 5 cut(s) 134, 160, 493, 628, 944
Sau96I GGNCC 1 cut(s) 678
SchI GAGTC 2 cut(s) 35, 436
ScrFI CCNGG 3 cut(s) 454, 572, 936
SduI GDGCHC 2 cut(s) 153, 1033
SetI ASST 9 cut(s) 181, 474, 550, 601, 612, 847, 903, 1016, 1033
SfaNI GCATC 3 cut(s) 38, 301, 742
SfcI CTRYAG 1 cut(s) 33
SmiMI CAYNNNNRTG 4 cut(s) 156, 162, 657, 978
SmlI CTYRAG 4 cut(s) 282, 521, 991, 1018
SmoI CTYRAG 4 cut(s) 282, 521, 991, 1018
Sse9I AATT 7 cut(s) 76, 197, 270, 300, 322, 336, 555
SsiI CCGC 2 cut(s) 484, 1009
SspI AATATT 1 cut(s) 345
SspMI CTAG 4 cut(s) 132, 812, 846, 942
SstI GAGCTC 1 cut(s) 1033
StyD4I CCNGG 3 cut(s) 452, 570, 934
StyI CCWWGG 1 cut(s) 373
TaqI TCGA 1 cut(s) 257
TasI AATT 7 cut(s) 76, 197, 270, 300, 322, 336, 555
TatI WGTACW 1 cut(s) 540
TfiI GAWTC 3 cut(s) 173, 526, 817
Tru1I TTAA 6 cut(s) 225, 341, 468, 488, 552, 986
Tru9I TTAA 6 cut(s) 225, 341, 468, 488, 552, 986
TscAI CASTG 2 cut(s) 355, 735
TseFI GTSAC 1 cut(s) 101
TseI GCWGC 3 cut(s) 481, 1011, 1014
Tsp45I GTSAC 1 cut(s) 101
TspDTI ATGAA 8 cut(s) 156, 208, 305, 308, 309, 506, 797, 900
TspRI CASTG 2 cut(s) 355, 735
Van91I CCANNNNNTGG 1 cut(s) 590
XagI CCTNNNNNAGG 1 cut(s) 673
XapI RAATTY 2 cut(s) 76, 270
XbaI TCTAGA 2 cut(s) 131, 941
XspI CTAG 4 cut(s) 132, 812, 846, 942
Zsp2I ATGCAT 1 cut(s) 31
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.