Rorug04G0238400

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0013315
Physical Location & Seq
Forward (+)
40522573 .. 40524063
1491 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0238400.1

Sequence Viewer

Length: 1491 bp
ATGTTAGCCAAACAAGGATGGAGAATTGTCACAAACCCTTCGTCGCTTATTGCCAAGTTGTACAAGGCCAGGTATTTTCCAAACTATGATTTTTGGCAAGCAGAGTTAGGTGATGCACCTTCCTTTTCATGGAGAAGTATTCTTGCAGGTAGACCTGTGCTCAAGGCTGGTACTAGATGGCGCATCGGGGATGGTAAAAAGATTAATATATGGAATGAGTCATGGATACCAAACTGCTCACCGAGCCTTGTCCAGAGACCAACCCACTCTCCGGTTGAGATGGTGTCTGATCTCATTGATGCGTCTACTAAACAATGGATTCCTCCCATTATTCACGGGATTTTTCAACCTTCAGTGGCAGCCAAAATTCTTAGTATTCCTCTAGCACATCAGAACGGACTTGATAAGCACTATTGGTATCCGGATCGTAGGGGTTGGTACACAATCAAGAGTGCTTACTGGTTTGCTCGGCAACAGGTTCTTGGCAATGCCCTACCCTCATCATCTAATGGAGATCCATTCAAGGAGCTATGGAGAAAGCTTTGGAAGGCACGGGTGCCTGGCAAAGTGCAGATTTGTGCATGGAGGGCTTGCTACAATTTACTTCCTACTCGTGAAAGACTTACAACTAAAGGGTATGAGGGTGATCTACACTGTCTTCTGTGCCATTATGCTGTTGAAGACTCTTCTCATCTCTTTTGTACATGTCCTACGGCTACCAGGCTGCTATCCCAAGCTCCCTTCCATCTGCAAAACTCATTGCTGCCTAATATCAACTTTAAAGAATGGTTGTTGGAAAGGGCTATGCATCTCAAGATGGAGGTGTTTGAGAAGCTTCTGATGCTTATATGGGGTATGTGGAAAAATCGAAACTCAAAATTATGGGAAAACAAGGCCAGTTCGCCCTCTGATATCTTTCTCAGGTGTATGACTTGGTTGGATGAGTTTCACCAAGCTAGAAAGTCTGATACTGCACCCCAAGTGCCAGTCAGTAAGAGGTGGAATCCGGCAAGCACAGCTACGCTTACTTGGAATGTGGATGGGGCATTTCTTCCTCAGTTCACAAAAGGCGGGCTGGGTGGTGTTCTTCGAAATGCTAGAGGAGAGGTTCAGGCTGCTTTTCAAGCTGCAGTTCCGTTTGTCAGCTCTCCAATACATGTTGAACTTCTTGCAATTCAGTCGGGTTTGCAACTTGTCAGATTGCATAAATTCCAGTCGGTTTGCATTGTGTCGGACTGCTTATTGGCTGTGCAGGACATCAATGGCAGGTTTCCTATTCTATCGGAGTATGGACCATTAATTGAGGACATCCAGCTCATGATACAACAACTACATCCAATTCAGGTTTCTTATGCACCTCGTGCTTGTAATAGATTAGCTCACAGACTGGCTAGTTTAGCATATGAGTCAGAGCAAAGTGTTTGCTGGTTACATACAACCCCAGATTGTATTAGGGACATTGTACAAGAGGAGCTTCCTCCTCCCACTTAA
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
No domains found.

Protein Analysis

496

Amino Acids

56.57

Weight (kDa)

9.19

Isoelectric Point (pI)

54.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 147 - 241 3.3e-15 zinc-binding in reverse transcriptase
RVT_3 PF13456 345 - 466 1.3e-21 Reverse transcriptase-like
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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Orthologous Genes (Group: OG0013315)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13090
fragaria_vesca FvH4_4g23440
malus_domestica MD05G1113800.v1.1 MD13G1122500.v1.1 MD16G1123000.v1.1
prunus_persica Prupe.1G222700_v2.0.a1 Prupe.6G184300_v2.0.a1
pyrus_communis pycom13g10660
rosa_chinensis RchiOBHm_Chr4g0429791
rosa_laevigata RLG00000007042
rosa_multiflora Rmu_co8022056.1_g000001 Rmu_sc0018457.1_g000001
rosa_roxburghii Rroxscaffold_5G00371570
rosa_rugosa Rorug04G0238400
rosa_samantha Rh4BG300700 Rh4CG316200 Rh4DG297800
rosa_wichuraiana Rw4G025480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 137, 1257
AccB1I GGYRCC 1 cut(s) 556
AccI GTMKAC 2 cut(s) 151, 305
AccIII TCCGGA 1 cut(s) 421
AciI CCGC 1 cut(s) 1071
AclWI GGATC 2 cut(s) 432, 509
AcsI RAATTY 2 cut(s) 366, 1208
AcuI CTGAAG 1 cut(s) 336
AdeI CACNNNGTG 1 cut(s) 1361
AfaI GTAC 5 cut(s) 62, 172, 440, 703, 1464
AfiI CCNNNNNNNGG 2 cut(s) 129, 271
AflIII ACRYGT 2 cut(s) 704, 1156
AgsI TTSAA 5 cut(s) 347, 523, 680, 1124, 1163
AjnI CCWGG 3 cut(s) 68, 559, 719
AjuI GAANNNNNNNTTGG 2 cut(s) 1330, 1362
Alw21I GWGCWC 1 cut(s) 162
Alw26I GTCTC 1 cut(s) 250
AlwI GGATC 2 cut(s) 432, 509
Aor13HI TCCGGA 1 cut(s) 421
AoxI GGCC 2 cut(s) 66, 894
ApeKI GCWGC 5 cut(s) 359, 724, 763, 1115, 1127
ApoI RAATTY 2 cut(s) 366, 1208
ArsI GACNNNNNNTTYG 2 cut(s) 26, 58
AseI ATTAAT 2 cut(s) 204, 1298
AspLEI GCGC 1 cut(s) 183
AspS9I GGNCC 1 cut(s) 1292
AsuHPI GGTGA 4 cut(s) 122, 231, 656, 941
AsuII TTCGAA 1 cut(s) 1090
AvaII GGWCC 1 cut(s) 1292
BanI GGYRCC 1 cut(s) 556
BauI CACGAG 2 cut(s) 612, 1359
BbsI GAAGAC 2 cut(s) 650, 687
Bbv12I GWGCWC 1 cut(s) 162
BbvI GCAGC 5 cut(s) 371, 711, 750, 1102, 1114
BccI CCATC 7 cut(s) 12, 171, 185, 274, 753, 811, 1034
BceAI ACGGC 1 cut(s) 729
BcgI CGANNNNNNTGC 2 cut(s) 1161, 1195
BciT130I CCWGG 3 cut(s) 70, 561, 721
BciVI GTATCC 2 cut(s) 219, 429
BcoDI GTCTC 1 cut(s) 250
BfaI CTAG 5 cut(s) 174, 383, 957, 1098, 1392
BfmI CTRYAG 1 cut(s) 1128
BfuAI ACCTGC 2 cut(s) 137, 1257
BfuI GTATCC 2 cut(s) 219, 429
BisI GCNGC 5 cut(s) 360, 725, 764, 1116, 1128
BlsI GCNGC 5 cut(s) 361, 726, 765, 1117, 1129
Bme1390I CCNGG 3 cut(s) 70, 561, 721
Bme18I GGWCC 1 cut(s) 1292
BmgT120I GGNCC 1 cut(s) 1292
BmiI GGNNCC 1 cut(s) 558
BmrFI CCNGG 3 cut(s) 70, 561, 721
BmsI GCATC 5 cut(s) 103, 192, 289, 817, 831
BpiI GAAGAC 2 cut(s) 650, 687
Bpu14I TTCGAA 1 cut(s) 1090
BpuEI CTTGAG 2 cut(s) 146, 797
BsaI GGTCTC 1 cut(s) 250
BsaWI WCCGGW 2 cut(s) 271, 421
BsaXI ACNNNNNCTCC 2 cut(s) 253, 283
Bsc4I CCNNNNNNNGG 2 cut(s) 129, 271
Bse1I ACTGG 5 cut(s) 464, 897, 986, 1213, 1392
Bse3DI GCAATG 2 cut(s) 493, 758
BseAI TCCGGA 1 cut(s) 421
BseBI CCWGG 3 cut(s) 70, 561, 721
BseGI GGATG 6 cut(s) 23, 196, 946, 1045, 1308, 1333
BseLI CCNNNNNNNGG 2 cut(s) 129, 271
BseMI GCAATG 2 cut(s) 493, 758
BseMII CTCAG 2 cut(s) 934, 1070
BseNI ACTGG 5 cut(s) 464, 897, 986, 1213, 1392
BseRI GAGGAG 3 cut(s) 1116, 1470, 1484
BseXI GCAGC 5 cut(s) 371, 711, 750, 1102, 1114
BseYI CCCAGC 1 cut(s) 1075
BsgI GTGCAG 3 cut(s) 590, 957, 1271
BshFI GGCC 2 cut(s) 68, 896
BshNI GGYRCC 1 cut(s) 556
BsiHKAI GWGCWC 1 cut(s) 162
BsiSI CCGG 3 cut(s) 272, 422, 1007
BslFI GGGAC 1 cut(s) 1469
BslI CCNNNNNNNGG 2 cut(s) 129, 271
BsmAI GTCTC 1 cut(s) 250
BsmFI GGGAC 1 cut(s) 1469
BsnI GGCC 2 cut(s) 68, 896
Bso31I GGTCTC 1 cut(s) 250
Bsp119I TTCGAA 1 cut(s) 1090
Bsp1286I GDGCHC 1 cut(s) 162
Bsp13I TCCGGA 1 cut(s) 421
Bsp1407I TGTACA 3 cut(s) 60, 701, 1462
Bsp143I GATC 4 cut(s) 289, 424, 514, 646
BspACI CCGC 1 cut(s) 1071
BspANI GGCC 2 cut(s) 68, 896
BspCNI CTCAG 2 cut(s) 933, 1069
BspEI TCCGGA 1 cut(s) 421
BspHI TCATGA 1 cut(s) 1317
BspLI GGNNCC 1 cut(s) 558
BspMAI CTGCAG 1 cut(s) 1132
BspMI ACCTGC 2 cut(s) 137, 1257
BspPI GGATC 2 cut(s) 432, 509
BspT104I TTCGAA 1 cut(s) 1090
BspT107I GGYRCC 1 cut(s) 556
BspTNI GGTCTC 1 cut(s) 250
BsrDI GCAATG 2 cut(s) 493, 758
BsrGI TGTACA 3 cut(s) 60, 701, 1462
BsrI ACTGG 5 cut(s) 464, 897, 986, 1213, 1392
BssMI GATC 4 cut(s) 289, 424, 514, 646
BssSI CACGAG 2 cut(s) 612, 1359
Bst2BI CACGAG 2 cut(s) 612, 1359
Bst2UI CCWGG 3 cut(s) 70, 561, 721
Bst4CI ACNGT 1 cut(s) 656
Bst6I CTCTTC 1 cut(s) 691
BstAPI GCANNNNNTGC 1 cut(s) 1361
BstAUI TGTACA 3 cut(s) 60, 701, 1462
BstBI TTCGAA 1 cut(s) 1090
BstC8I GCNNGC 4 cut(s) 99, 592, 1012, 1073
BstDEI CTNAG 3 cut(s) 371, 920, 1056
BstF5I GGATG 6 cut(s) 23, 196, 946, 1045, 1308, 1333
BstHHI GCGC 1 cut(s) 183
BstKTI GATC 4 cut(s) 292, 427, 517, 649
BstMAI GTCTC 1 cut(s) 250
BstMBI GATC 4 cut(s) 289, 424, 514, 646
BstMWI GCNNNNNNNGC 7 cut(s) 243, 587, 841, 1016, 1124, 1361, 1397
BstNI CCWGG 3 cut(s) 70, 561, 721
BstNSI RCATGY 2 cut(s) 708, 1160
BstSCI CCNGG 3 cut(s) 68, 559, 719
BstSFI CTRYAG 1 cut(s) 1128
BstV1I GCAGC 5 cut(s) 371, 711, 750, 1102, 1114
BstV2I GAAGAC 2 cut(s) 650, 687
BstX2I RGATCY 1 cut(s) 514
BstYI RGATCY 1 cut(s) 514
BsuI GTATCC 2 cut(s) 219, 429
BsuRI GGCC 2 cut(s) 68, 896
BtsCI GGATG 6 cut(s) 23, 196, 946, 1045, 1308, 1333
BtsIMutI CAGTG 2 cut(s) 360, 652
BveI ACCTGC 2 cut(s) 137, 1257
Cac8I GCNNGC 4 cut(s) 99, 592, 1012, 1073
CciI TCATGA 1 cut(s) 1317
CfoI GCGC 1 cut(s) 183
Cfr13I GGNCC 1 cut(s) 1292
CseI GACGC 1 cut(s) 291
Csp6I GTAC 5 cut(s) 61, 171, 439, 702, 1463
CviAII CATG 6 cut(s) 129, 222, 582, 705, 1157, 1318
CviQI GTAC 5 cut(s) 61, 171, 439, 702, 1463
DdeI CTNAG 3 cut(s) 371, 920, 1056
DpnI GATC 4 cut(s) 291, 426, 516, 648
DpnII GATC 4 cut(s) 289, 424, 514, 646
DraI TTTAAA 1 cut(s) 781
DraIII CACNNNGTG 1 cut(s) 1361
Eam1104I CTCTTC 1 cut(s) 691
EarI CTCTTC 1 cut(s) 691
Eco31I GGTCTC 1 cut(s) 250
Eco32I GATATC 1 cut(s) 913
Eco47I GGWCC 1 cut(s) 1292
Eco57I CTGAAG 1 cut(s) 336
EcoRII CCWGG 3 cut(s) 68, 559, 719
EcoRV GATATC 1 cut(s) 913
EcoT22I ATGCAT 1 cut(s) 810
FaeI CATG 6 cut(s) 132, 225, 585, 708, 1160, 1321
FalI AAGNNNNNCTT 2 cut(s) 1458, 1490
FaqI GGGAC 1 cut(s) 1469
FatI CATG 6 cut(s) 128, 221, 581, 704, 1156, 1317
FauI CCCGC 1 cut(s) 1064
FauNDI CATATG 1 cut(s) 1402
FblI GTMKAC 2 cut(s) 151, 305
Fnu4HI GCNGC 5 cut(s) 360, 725, 764, 1116, 1128
FokI GGATG 6 cut(s) 30, 203, 953, 1052, 1295, 1320
Fsp4HI GCNGC 5 cut(s) 360, 725, 764, 1116, 1128
FspBI CTAG 5 cut(s) 174, 383, 957, 1098, 1392
GlaI GCGC 1 cut(s) 182
GluI GCNGC 5 cut(s) 360, 725, 764, 1116, 1128
GsaI CCCAGC 1 cut(s) 1079
HaeIII GGCC 2 cut(s) 68, 896
HapII CCGG 3 cut(s) 272, 422, 1007
HgaI GACGC 1 cut(s) 291
HhaI GCGC 1 cut(s) 183
Hin1II CATG 6 cut(s) 132, 225, 585, 708, 1160, 1321
Hin6I GCGC 1 cut(s) 181
HinP1I GCGC 1 cut(s) 181
HindIII AAGCTT 2 cut(s) 539, 833
HinfI GANTC 5 cut(s) 218, 319, 683, 1003, 1406
HpaII CCGG 3 cut(s) 272, 422, 1007
HphI GGTGA 4 cut(s) 122, 231, 656, 941
Hpy166II GTNNAC 4 cut(s) 152, 306, 441, 1062
Hpy188I TCNGA 9 cut(s) 289, 393, 840, 910, 967, 1199, 1234, 1285, 1411
Hpy188III TCNNGA 6 cut(s) 253, 422, 448, 614, 814, 1318
Hpy8I GTNNAC 4 cut(s) 152, 306, 441, 1062
Hpy99I CGWCG 1 cut(s) 46
HpyAV CCTTC 5 cut(s) 48, 129, 360, 541, 751
HpyCH4III ACNGT 1 cut(s) 656
HpyF10VI GCNNNNNNNGC 7 cut(s) 243, 587, 841, 1016, 1124, 1361, 1397
HpyF3I CTNAG 3 cut(s) 371, 920, 1056
Hsp92II CATG 6 cut(s) 132, 225, 585, 708, 1160, 1321
HspAI GCGC 1 cut(s) 181
Kpn2I TCCGGA 1 cut(s) 421
Kzo9I GATC 4 cut(s) 289, 424, 514, 646
LmnI GCTCC 3 cut(s) 526, 742, 1471
Lsp1109I GCAGC 5 cut(s) 371, 711, 750, 1102, 1114
LweI GCATC 5 cut(s) 103, 192, 289, 817, 831
MaeI CTAG 5 cut(s) 174, 383, 957, 1098, 1392
MaeIII GTNAC 2 cut(s) 28, 1428
MalI GATC 4 cut(s) 291, 426, 516, 648
MboI GATC 4 cut(s) 289, 424, 514, 646
MboII GAAGA 5 cut(s) 650, 678, 692, 1043, 1079
MflI RGATCY 1 cut(s) 514
MhlI GDGCHC 1 cut(s) 162
MluCI AATT 8 cut(s) 24, 366, 598, 878, 1173, 1208, 1299, 1338
MlyI GAGTC 3 cut(s) 227, 677, 1415
MmeI TCCRAC 3 cut(s) 774, 918, 1212
Mph1103I ATGCAT 1 cut(s) 810
MroI TCCGGA 1 cut(s) 421
MseI TTAA 4 cut(s) 204, 780, 1298, 1489
MspI CCGG 3 cut(s) 272, 422, 1007
MspR9I CCNGG 3 cut(s) 70, 561, 721
MvaI CCWGG 3 cut(s) 70, 561, 721
MwoI GCNNNNNNNGC 7 cut(s) 243, 587, 841, 1016, 1124, 1361, 1397
NdeI CATATG 1 cut(s) 1402
NdeII GATC 4 cut(s) 289, 424, 514, 646
NlaIII CATG 6 cut(s) 132, 225, 585, 708, 1160, 1321
NlaIV GGNNCC 1 cut(s) 558
NmeAIII GCCGAG 1 cut(s) 448
NmuCI GTSAC 1 cut(s) 28
NsiI ATGCAT 1 cut(s) 810
NspI RCATGY 2 cut(s) 708, 1160
NspV TTCGAA 1 cut(s) 1090
PagI TCATGA 1 cut(s) 1317
PciI ACATGT 2 cut(s) 704, 1156
PfeI GAWTC 2 cut(s) 319, 1003
PkrI GCNGC 5 cut(s) 361, 726, 765, 1117, 1129
PleI GAGTC 3 cut(s) 226, 677, 1414
PpsI GAGTC 3 cut(s) 226, 677, 1414
PscI ACATGT 2 cut(s) 704, 1156
PshBI ATTAAT 2 cut(s) 204, 1298
Psp6I CCWGG 3 cut(s) 68, 559, 719
PspFI CCCAGC 1 cut(s) 1075
PspGI CCWGG 3 cut(s) 68, 559, 719
PspN4I GGNNCC 1 cut(s) 558
PspPI GGNCC 1 cut(s) 1292
PstI CTGCAG 1 cut(s) 1132
PsuI RGATCY 1 cut(s) 514
RsaI GTAC 5 cut(s) 62, 172, 440, 703, 1464
RsaNI GTAC 5 cut(s) 61, 171, 439, 702, 1463
SaqAI TTAA 4 cut(s) 204, 780, 1298, 1489
SatI GCNGC 5 cut(s) 360, 725, 764, 1116, 1128
Sau3AI GATC 4 cut(s) 289, 424, 514, 646
Sau96I GGNCC 1 cut(s) 1292
SchI GAGTC 3 cut(s) 227, 677, 1415
ScrFI CCNGG 3 cut(s) 70, 561, 721
SduI GDGCHC 1 cut(s) 162
SfaNI GCATC 5 cut(s) 103, 192, 289, 817, 831
SfcI CTRYAG 1 cut(s) 1128
SfuI TTCGAA 1 cut(s) 1090
SinI GGWCC 1 cut(s) 1292
SmlI CTYRAG 2 cut(s) 161, 812
SmoI CTYRAG 2 cut(s) 161, 812
Sse9I AATT 8 cut(s) 24, 366, 598, 878, 1173, 1208, 1299, 1338
SsiI CCGC 1 cut(s) 1071
SspMI CTAG 5 cut(s) 174, 383, 957, 1098, 1392
StyD4I CCNGG 3 cut(s) 68, 559, 719
TaaI ACNGT 1 cut(s) 656
TaqI TCGA 2 cut(s) 868, 1090
TasI AATT 8 cut(s) 24, 366, 598, 878, 1173, 1208, 1299, 1338
TatI WGTACW 3 cut(s) 60, 701, 1462
TfiI GAWTC 2 cut(s) 319, 1003
Tru1I TTAA 4 cut(s) 204, 780, 1298, 1489
Tru9I TTAA 4 cut(s) 204, 780, 1298, 1489
TscAI CASTG 2 cut(s) 360, 659
TseFI GTSAC 1 cut(s) 28
TseI GCWGC 5 cut(s) 359, 724, 763, 1115, 1127
Tsp45I GTSAC 1 cut(s) 28
TspDTI ATGAA 1 cut(s) 117
TspGWI ACGGA 2 cut(s) 411, 1125
TspRI CASTG 2 cut(s) 360, 659
VpaK11BI GGWCC 1 cut(s) 1292
VspI ATTAAT 2 cut(s) 204, 1298
XapI RAATTY 2 cut(s) 366, 1208
XceI RCATGY 2 cut(s) 708, 1160
XmiI GTMKAC 2 cut(s) 151, 305
XspI CTAG 5 cut(s) 174, 383, 957, 1098, 1392
Zsp2I ATGCAT 1 cut(s) 810
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.