Rroxscaffold_3G00234320

YT521-B-like domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0004199
Physical Location & Seq
Reverse (-)
20611324 .. 20616599
5276 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00234320.1

Sequence Viewer

Length: 1692 bp
ATGGCCGGCGAAAAGAAGATTGAGAAAGCTGAGCCTGTAGCCACTGCGTTGGCCTCAGATTCTGTTTCCGGATTAGGAGAGCAACAACTGGTTTCTGGGAAAGACGGAATGCCATATGATGCGATCTCCTCCATGTCTTCTTCGAGGGATGCCACCGACAGCATGAAAGGTGAGACTGATCAAGAGTCGGTTGGAGAGCATGGTGTTTACTATCCACCCACTAGCTGTTACAATTATTATTATCCAGGATATAATGGATCCTATACGCAGTTGGACGAACATCGCTATGCAAATGCTAATAATTCACAGGCGGGTGTGCAGTCAGACAATGGTTCAATGGTCTATTATCTCCCCGGCTATAATCCATATGCCCCTGGAACTCTTATGGGTGTTGATGGCCAGGGTGTTGGTCAACAGCAGTATTTTTCTTCCTCAGGTTATATGCAGCCACCTGTTTCGTATGGTTCAGAAGCTATGCCTTGTTATTCATGGGACACAACATTTTCTGGCGATATCTCTACAGCAACAAACTCTGGTTTTGGAAATCTAAAGTCTGGACCAGGTGGTACTGCTTTATCTAGGTCAAGTGGCTTTATGTCGGGCAAAACGAATGGAAATCTTGCTAGCAAATTTTCCAAGCCTTTCCCTTCTACACAACCCATCAAATCATTAAACAAGGTGCCTCATTTAGGTTCTGATTTCTCAGCCAGTCTTTTGAAGGGATACCCCTCAACTGGAAGGTTCTCATCATTCACTAACCAGAAGGGTCTGTTTCCTCTTAATGGTCAAACAAACTACAAATCTAATGGGAGGATATTAAATGGAAACGACAGATTCAAGTCAAGGGAAAAATATAACAGAAATGAGGATTTTGAATCCTCAACTGAGTTGACACGTGGTCCAAGATCTCGCAACAAGATTACTCCTTCAGACTCATCAGTTGAGAAGGAAGTATTGGGATTTACAGTCAGTAGAGATAAATACAACCTACCAGATTTTCAGACTGATTATGAAAGTGCGAAGTTCTATGTCATTAAGTCTTACAGTGAAGATGATGTCCATAAGAGCATTAAATATGATGTTTGGGCCAGCACTCCGAATGGCAATAAGAAATTGGATGTAGCATTTCGTGATGCTGAAGCAAAATCGAGTGAGACAGGCACACGGTGTCCTATCTTCCTATTTTTCTCGGTGAATGGAAGTGGGCAGTTTGTAGGCCTGGCCGAGATGATTGGGGAGGTAGATTTCAACAAAGATATGGACTTCTGGCAAGTTGACAAGTGGAGTGGGTTCTTCCCAGTTAAATGGCATATAATAAAGGACATACCTAACACTCAGTTGCGGCATATTATCCTTGAAAACAATGATAGCAGACCTGTAACTTTTACCCGGGACACTCAAGAGATTGGACTGAAGCAAGGTTTGGAAATGCTGAACATATTCAAAACTTATGCACCCAGATCATCTTTGTTAGATGATTTCAATTTCTATGAAAATCGAGAAAAGTCTCTACAAGCCAAAAGGAGCAGTAAACCTGCGACTTTAAAGATTGAAACTTACGATGATGGTGATATCCCTGAGCATATGAGTGCCGTAGGGGAAGACCTTGAAGCTGAATCAGGTGGGATCGGGATGACTTCTGACCGAACATCTCTCATTTCACTTGCTAAAAATCTCTCTCTCAATGCTTGA
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

563

Amino Acids

62.05

Weight (kDa)

5.42

Isoelectric Point (pI)

40.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YTH PF04146 340 - 482 1.3e-44 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1543
AccB1I GGYRCC 1 cut(s) 679
AccIII TCCGGA 1 cut(s) 68
AciI CCGC 2 cut(s) 311, 1342
AclWI GGATC 3 cut(s) 252, 265, 1634
AcoI YGGCCR 3 cut(s) 3, 397, 1221
AcsI RAATTY 1 cut(s) 629
AcuI CTGAAG 3 cut(s) 912, 1158, 1433
AcvI CACGTG 1 cut(s) 896
AdeI CACNNNGTG 1 cut(s) 1167
AfaI GTAC 1 cut(s) 568
AfiI CCNNNNNNNGG 3 cut(s) 689, 734, 782
AflIII ACRYGT 1 cut(s) 893
AhdI GACNNNNNGTC 1 cut(s) 897
AjnI CCWGG 5 cut(s) 244, 373, 399, 559, 1218
AjuI GAANNNNNNNTTGG 4 cut(s) 938, 970, 1406, 1438
AluBI AGCT 4 cut(s) 29, 225, 473, 1613
AluI AGCT 4 cut(s) 29, 225, 473, 1613
Alw26I GTCTC 3 cut(s) 167, 1148, 1512
AlwI GGATC 3 cut(s) 252, 265, 1634
AlwNI CAGNNNCTG 1 cut(s) 62
Ama87I CYCGRG 1 cut(s) 1389
Aor13HI TCCGGA 1 cut(s) 68
AoxI GGCC 6 cut(s) 3, 51, 397, 1086, 1216, 1221
ApeKI GCWGC 1 cut(s) 445
ApoI RAATTY 1 cut(s) 629
Asp700I GAANNNNTTC 1 cut(s) 1439
AspS9I GGNCC 3 cut(s) 557, 899, 1086
AsuC2I CCSGG 3 cut(s) 354, 1390, 1391
AsuHPI GGTGA 3 cut(s) 182, 1204, 1580
AsuNHI GCTAGC 1 cut(s) 623
AvaI CYCGRG 1 cut(s) 1389
AvaII GGWCC 2 cut(s) 557, 899
AxyI CCTNAGG 1 cut(s) 433
BalI TGGCCA 1 cut(s) 399
BamHI GGATCC 1 cut(s) 257
BanI GGYRCC 1 cut(s) 679
BbrPI CACGTG 1 cut(s) 896
BbsI GAAGAC 2 cut(s) 129, 1608
BbvI GCAGC 1 cut(s) 457
BccI CCATC 3 cut(s) 389, 668, 1559
BceAI ACGGC 1 cut(s) 1577
BciT130I CCWGG 5 cut(s) 246, 375, 401, 561, 1220
BciVI GTATCC 1 cut(s) 716
BclI TGATCA 1 cut(s) 178
BcnI CCSGG 3 cut(s) 354, 1390, 1391
BcoDI GTCTC 3 cut(s) 167, 1148, 1512
BfaI CTAG 3 cut(s) 222, 579, 624
BfmI CTRYAG 2 cut(s) 36, 519
BfuAI ACCTGC 1 cut(s) 1543
BfuI GTATCC 1 cut(s) 716
BglII AGATCT 1 cut(s) 905
BisI GCNGC 2 cut(s) 446, 1343
BlpI GCTNAGC 1 cut(s) 30
BlsI GCNGC 2 cut(s) 447, 1344
Bme1390I CCNGG 8 cut(s) 246, 354, 375, 401, 561, 1220, 1390, 1391
Bme18I GGWCC 2 cut(s) 557, 899
BmeRI GACNNNNNGTC 1 cut(s) 897
BmeT110I CYCGRG 1 cut(s) 1389
BmgT120I GGNCC 3 cut(s) 557, 899, 1086
BmiI GGNNCC 2 cut(s) 259, 681
BmrFI CCNGG 8 cut(s) 246, 354, 375, 401, 561, 1220, 1390, 1391
BmrI ACTGGG 1 cut(s) 1292
BmsI GCATC 3 cut(s) 109, 139, 1123
BmtI GCTAGC 1 cut(s) 627
BmuI ACTGGG 1 cut(s) 1292
BpiI GAAGAC 2 cut(s) 129, 1608
Bpu10I CCTNAGC 1 cut(s) 1578
Bpu1102I GCTNAGC 1 cut(s) 30
BpuEI CTTGAG 1 cut(s) 1383
BpuMI CCSGG 3 cut(s) 354, 1390, 1391
BsaAI YACGTR 1 cut(s) 896
BsaJI CCNNGG 4 cut(s) 352, 373, 400, 1389
BsaWI WCCGGW 1 cut(s) 68
Bsc4I CCNNNNNNNGG 3 cut(s) 689, 734, 782
Bse118I RCCGGY 1 cut(s) 5
Bse1I ACTGG 4 cut(s) 93, 708, 739, 1298
Bse21I CCTNAGG 1 cut(s) 433
BseAI TCCGGA 1 cut(s) 68
BseBI CCWGG 5 cut(s) 246, 375, 401, 561, 1220
BseDI CCNNGG 4 cut(s) 352, 373, 400, 1389
BseGI GGATG 3 cut(s) 154, 1123, 1638
BseLI CCNNNNNNNGG 3 cut(s) 689, 734, 782
BseMII CTCAG 7 cut(s) 21, 69, 447, 717, 876, 1349, 1569
BseNI ACTGG 4 cut(s) 93, 708, 739, 1298
BseRI GAGGAG 1 cut(s) 118
BseXI GCAGC 1 cut(s) 457
BsgI GTGCAG 1 cut(s) 338
BshFI GGCC 6 cut(s) 5, 53, 399, 1088, 1218, 1223
BshNI GGYRCC 1 cut(s) 679
BsiHKCI CYCGRG 1 cut(s) 1389
BsiSI CCGG 4 cut(s) 6, 69, 354, 1390
BslFI GGGAC 2 cut(s) 506, 1406
BslI CCNNNNNNNGG 3 cut(s) 689, 734, 782
BsmAI GTCTC 3 cut(s) 167, 1148, 1512
BsmFI GGGAC 2 cut(s) 506, 1406
BsmI GAATGC 1 cut(s) 114
BsnI GGCC 6 cut(s) 5, 53, 399, 1088, 1218, 1223
BsoBI CYCGRG 1 cut(s) 1389
Bsp13I TCCGGA 1 cut(s) 68
Bsp143I GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
Bsp1720I GCTNAGC 1 cut(s) 30
BspACI CCGC 2 cut(s) 311, 1342
BspANI GGCC 6 cut(s) 5, 53, 399, 1088, 1218, 1223
BspCNI CTCAG 7 cut(s) 22, 68, 446, 716, 877, 1348, 1570
BspEI TCCGGA 1 cut(s) 68
BspLI GGNNCC 2 cut(s) 259, 681
BspMI ACCTGC 1 cut(s) 1543
BspOI GCTAGC 1 cut(s) 627
BspPI GGATC 3 cut(s) 252, 265, 1634
BspT107I GGYRCC 1 cut(s) 679
BsrFI RCCGGY 1 cut(s) 5
BsrI ACTGG 4 cut(s) 93, 708, 739, 1298
BssAI RCCGGY 1 cut(s) 5
BssECI CCNNGG 4 cut(s) 352, 373, 400, 1389
BssMI GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
Bst2UI CCWGG 5 cut(s) 246, 375, 401, 561, 1220
Bst4CI ACNGT 3 cut(s) 967, 1046, 1167
BstBAI YACGTR 1 cut(s) 896
BstC8I GCNNGC 3 cut(s) 7, 625, 1090
BstDEI CTNAG 7 cut(s) 30, 55, 433, 703, 885, 1335, 1578
BstENI CCTNNNNNAGG 1 cut(s) 687
BstF5I GGATG 3 cut(s) 154, 1123, 1638
BstKTI GATC 6 cut(s) 126, 181, 260, 908, 1463, 1629
BstMAI GTCTC 3 cut(s) 167, 1148, 1512
BstMBI GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
BstNI CCWGG 5 cut(s) 246, 375, 401, 561, 1220
BstSCI CCNGG 8 cut(s) 244, 352, 373, 399, 559, 1218, 1388, 1389
BstSFI CTRYAG 2 cut(s) 36, 519
BstV1I GCAGC 1 cut(s) 457
BstV2I GAAGAC 2 cut(s) 129, 1608
BstX2I RGATCY 2 cut(s) 257, 905
BstXI CCANNNNNNTGG 3 cut(s) 49, 407, 1305
BstYI RGATCY 2 cut(s) 257, 905
Bsu36I CCTNAGG 1 cut(s) 433
BsuI GTATCC 1 cut(s) 716
BsuRI GGCC 6 cut(s) 5, 53, 399, 1088, 1218, 1223
BtgZI GCGATG 1 cut(s) 266
BtsCI GGATG 3 cut(s) 154, 1123, 1638
BtsI GCAGTG 1 cut(s) 42
BtsIMutI CAGTG 2 cut(s) 42, 1051
BveI ACCTGC 1 cut(s) 1543
Cac8I GCNNGC 3 cut(s) 7, 625, 1090
CaiI CAGNNNCTG 1 cut(s) 62
Cfr10I RCCGGY 1 cut(s) 5
Cfr13I GGNCC 3 cut(s) 557, 899, 1086
Cfr9I CCCGGG 1 cut(s) 1389
CsiI ACCWGGT 1 cut(s) 559
Csp6I GTAC 1 cut(s) 567
CspCI CAANNNNNGTGG 2 cut(s) 1267, 1302
CviAII CATG 4 cut(s) 133, 163, 200, 489
CviQI GTAC 1 cut(s) 567
DdeI CTNAG 7 cut(s) 30, 55, 433, 703, 885, 1335, 1578
DpnI GATC 6 cut(s) 125, 180, 259, 907, 1462, 1628
DpnII GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
DraI TTTAAA 1 cut(s) 1545
DraIII CACNNNGTG 1 cut(s) 1167
DriI GACNNNNNGTC 1 cut(s) 897
EaeI YGGCCR 3 cut(s) 3, 397, 1221
Eam1105I GACNNNNNGTC 1 cut(s) 897
Eco147I AGGCCT 1 cut(s) 1218
Eco32I GATATC 2 cut(s) 514, 1573
Eco47I GGWCC 2 cut(s) 557, 899
Eco57I CTGAAG 3 cut(s) 912, 1158, 1433
Eco72I CACGTG 1 cut(s) 896
Eco81I CCTNAGG 1 cut(s) 433
Eco88I CYCGRG 1 cut(s) 1389
EcoNI CCTNNNNNAGG 1 cut(s) 687
EcoRII CCWGG 5 cut(s) 244, 373, 399, 559, 1218
EcoRV GATATC 2 cut(s) 514, 1573
FaeI CATG 4 cut(s) 136, 166, 203, 492
FaqI GGGAC 2 cut(s) 506, 1406
FatI CATG 4 cut(s) 132, 162, 199, 488
FauI CCCGC 1 cut(s) 304
FauNDI CATATG 3 cut(s) 115, 367, 1584
FbaI TGATCA 1 cut(s) 178
Fnu4HI GCNGC 2 cut(s) 446, 1343
FokI GGATG 3 cut(s) 161, 1130, 1645
Fsp4HI GCNGC 2 cut(s) 446, 1343
FspBI CTAG 3 cut(s) 222, 579, 624
GluI GCNGC 2 cut(s) 446, 1343
HaeIII GGCC 6 cut(s) 5, 53, 399, 1088, 1218, 1223
HapII CCGG 4 cut(s) 6, 69, 354, 1390
Hin1II CATG 4 cut(s) 136, 166, 203, 492
HincII GTYRAC 3 cut(s) 413, 891, 1276
HindII GTYRAC 3 cut(s) 413, 891, 1276
HinfI GANTC 6 cut(s) 59, 185, 834, 875, 932, 1616
HpaII CCGG 4 cut(s) 6, 69, 354, 1390
HphI GGTGA 3 cut(s) 182, 1204, 1580
Hpy166II GTNNAC 5 cut(s) 208, 413, 891, 1276, 1532
Hpy188I TCNGA 8 cut(s) 58, 325, 469, 697, 931, 1002, 1098, 1642
Hpy188III TCNNGA 7 cut(s) 69, 182, 555, 1130, 1400, 1499, 1630
Hpy8I GTNNAC 5 cut(s) 208, 413, 891, 1276, 1532
HpyAV CCTTC 6 cut(s) 657, 712, 732, 757, 936, 940
HpyCH4III ACNGT 3 cut(s) 967, 1046, 1167
HpyCH4IV ACGT 1 cut(s) 895
HpyCH4V TGCA 4 cut(s) 290, 319, 445, 1454
HpyF3I CTNAG 7 cut(s) 30, 55, 433, 703, 885, 1335, 1578
HpySE526I ACGT 1 cut(s) 895
Hsp92II CATG 4 cut(s) 136, 166, 203, 492
Kpn2I TCCGGA 1 cut(s) 68
KroI GCCGGC 1 cut(s) 5
KroNI GCCGGC 1 cut(s) 7
Ksp22I TGATCA 1 cut(s) 178
Kzo9I GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
LmnI GCTCC 1 cut(s) 1524
Lsp1109I GCAGC 1 cut(s) 457
LweI GCATC 3 cut(s) 109, 139, 1123
MabI ACCWGGT 1 cut(s) 559
MaeI CTAG 3 cut(s) 222, 579, 624
MaeII ACGT 1 cut(s) 895
MaeIII GTNAC 2 cut(s) 227, 1378
MalI GATC 6 cut(s) 125, 180, 259, 907, 1462, 1628
MboI GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
MboII GAAGA 8 cut(s) 28, 129, 132, 420, 1061, 1168, 1285, 1613
MflI RGATCY 2 cut(s) 257, 905
MlsI TGGCCA 1 cut(s) 399
MluCI AATT 5 cut(s) 232, 301, 629, 1112, 1483
MluNI TGGCCA 1 cut(s) 399
MlyI GAGTC 2 cut(s) 194, 926
MmeI TCCRAC 2 cut(s) 172, 252
Mox20I TGGCCA 1 cut(s) 399
MroI TCCGGA 1 cut(s) 68
MroNI GCCGGC 1 cut(s) 5
MroXI GAANNNNTTC 1 cut(s) 1439
MscI TGGCCA 1 cut(s) 399
MseI TTAA 7 cut(s) 671, 780, 818, 1035, 1071, 1302, 1544
MslI CAYNNNNRTG 2 cut(s) 285, 1587
Msp20I TGGCCA 1 cut(s) 399
MspI CCGG 4 cut(s) 6, 69, 354, 1390
MspR9I CCNGG 8 cut(s) 246, 354, 375, 401, 561, 1220, 1390, 1391
Mva1269I GAATGC 1 cut(s) 114
MvaI CCWGG 5 cut(s) 246, 375, 401, 561, 1220
NaeI GCCGGC 1 cut(s) 7
NciI CCSGG 3 cut(s) 354, 1390, 1391
NdeI CATATG 3 cut(s) 115, 367, 1584
NdeII GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
NgoMIV GCCGGC 1 cut(s) 5
NheI GCTAGC 1 cut(s) 623
NlaIII CATG 4 cut(s) 136, 166, 203, 492
NlaIV GGNNCC 2 cut(s) 259, 681
NmeAIII GCCGAG 1 cut(s) 1249
PceI AGGCCT 1 cut(s) 1218
PcsI WCGNNNNNNNCGW 1 cut(s) 605
PctI GAATGC 1 cut(s) 114
PdiI GCCGGC 1 cut(s) 7
PdmI GAANNNNTTC 1 cut(s) 1439
PfeI GAWTC 4 cut(s) 59, 834, 875, 1616
PfoI TCCNGGA 1 cut(s) 244
PkrI GCNGC 2 cut(s) 447, 1344
PleI GAGTC 2 cut(s) 193, 926
PmaCI CACGTG 1 cut(s) 896
PmlI CACGTG 1 cut(s) 896
PpsI GAGTC 2 cut(s) 193, 926
Ppu21I YACGTR 1 cut(s) 896
Psp6I CCWGG 5 cut(s) 244, 373, 399, 559, 1218
PspCI CACGTG 1 cut(s) 896
PspGI CCWGG 5 cut(s) 244, 373, 399, 559, 1218
PspN4I GGNNCC 2 cut(s) 259, 681
PspPI GGNCC 3 cut(s) 557, 899, 1086
PstNI CAGNNNCTG 1 cut(s) 62
PsuI RGATCY 2 cut(s) 257, 905
RsaI GTAC 1 cut(s) 568
RsaNI GTAC 1 cut(s) 567
RseI CAYNNNNRTG 2 cut(s) 285, 1587
SaqAI TTAA 7 cut(s) 671, 780, 818, 1035, 1071, 1302, 1544
SatI GCNGC 2 cut(s) 446, 1343
Sau3AI GATC 6 cut(s) 123, 178, 257, 905, 1460, 1626
Sau96I GGNCC 3 cut(s) 557, 899, 1086
SchI GAGTC 2 cut(s) 194, 926
ScrFI CCNGG 8 cut(s) 246, 354, 375, 401, 561, 1220, 1390, 1391
SexAI ACCWGGT 1 cut(s) 559
SfaNI GCATC 3 cut(s) 109, 139, 1123
SfcI CTRYAG 2 cut(s) 36, 519
SinI GGWCC 2 cut(s) 557, 899
SmaI CCCGGG 1 cut(s) 1391
SmiMI CAYNNNNRTG 2 cut(s) 285, 1587
SmlI CTYRAG 1 cut(s) 1398
SmoI CTYRAG 1 cut(s) 1398
Sse9I AATT 5 cut(s) 232, 301, 629, 1112, 1483
SseBI AGGCCT 1 cut(s) 1218
SsiI CCGC 2 cut(s) 311, 1342
SspMI CTAG 3 cut(s) 222, 579, 624
StuI AGGCCT 1 cut(s) 1218
StyD4I CCNGG 8 cut(s) 244, 352, 373, 399, 559, 1218, 1388, 1389
TaaI ACNGT 3 cut(s) 967, 1046, 1167
TaiI ACGT 1 cut(s) 898
TaqI TCGA 3 cut(s) 143, 1148, 1498
TaqII GACCGA 1 cut(s) 1659
TasI AATT 5 cut(s) 232, 301, 629, 1112, 1483
TauI GCSGC 1 cut(s) 1345
TfiI GAWTC 4 cut(s) 59, 834, 875, 1616
Tru1I TTAA 7 cut(s) 671, 780, 818, 1035, 1071, 1302, 1544
Tru9I TTAA 7 cut(s) 671, 780, 818, 1035, 1071, 1302, 1544
TscAI CASTG 2 cut(s) 49, 1051
TseI GCWGC 1 cut(s) 445
TspDTI ATGAA 4 cut(s) 179, 477, 1026, 1506
TspGWI ACGGA 1 cut(s) 120
TspMI CCCGGG 1 cut(s) 1389
TspRI CASTG 2 cut(s) 49, 1051
VpaK11BI GGWCC 2 cut(s) 557, 899
XagI CCTNNNNNAGG 1 cut(s) 687
XapI RAATTY 1 cut(s) 629
XmaI CCCGGG 1 cut(s) 1389
XmnI GAANNNNTTC 1 cut(s) 1439
XspI CTAG 3 cut(s) 222, 579, 624
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.