Rmu_sc0004769.1_g000009

transposition

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004769.1
OG0003630
Physical Location & Seq
Forward (+)
30459 .. 31784
1326 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1326 bp
ctgtacacaattcagaaaggtaatgataccatagacaagtattttcagcgtatcaaagacattactgatcagttaacttctgttggtattcatattcccgatgaagagattattatcatttctgttaatggccttccctctgagtacatgactatcaaaattgtggtcaaagctctgatcacaactaagtcaatgaacaaattgcattctcttttacttgatgaggagtctactattgatcaatctacaaagactatgcagaatagaatgcctactgttatcaattctagtgtcatttctagtatacctactttcaatcactacaacacaccaatcacctctactgtgcatcactttaatgctcaatcacctagttctactacgcactttgggataccacagaatgacatgatctcaaatgctgctatcaatatgcctaatgctgcctctattaatgtgcctaatgctgcctcaagttgtcaagacatgattctgcgttctaccaattttggtgcctctcagacaatacctaattctggatacatgttgaataacaatgttggtaatggaaactactttcctgcacctaccctttcttatggctatgcacctcaaactgatggtttcatacctcaaaatggcacctttataacttcaaatgggagattcatggctcagaatggtggttacactcctggttttcaacataactactctcagcaaggtttctctcagaacaatgtgtcacagcagcaaggttctctttcacaacaacagggctctttttcacaagctctaaacaacaactctaagaatggtccaacagcgatggttgatcataatagcttcaataactttcaggttacattattacactcaagctcatctcatcttgattctgttgtaccaattgatactcaaatatttccaacatccaaaatggaaattaaactagaaagctctggggaatctttcataattgcagatgaaagtggaaaggatcctgtgcatgatgttggcagccaaattaccatcgtcccttccaaagatagtatcctttatgcacaagaagattcatatcataaggagcctatggtgttatctggagatggttatgagctcagtcagtccaccgtgctagagtcagctttggaacctaggacaaatgctgcaacaagaaatggattttctgaaattgaaaatgacaaaggtagtaaactggaagtgctttcaaggtttgaactttctccaaacatagttggcaaaggtggcgaaagcagaactctaagtcaccaagactacctgaaaacgtctctaatcgcatga
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
HTH_21 rve

Protein Analysis

441

Amino Acids

48.12

Weight (kDa)

5.32

Isoelectric Point (pI)

44.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 8 - 80 6.4e-06 gag-polypeptide of LTR copia-type
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)
AanI TTATAA 1 cut(s) 650
AccB1I GGYRCC 2 cut(s) 512, 641
AccI GTMKAC 2 cut(s) 230, 304
AclWI GGATC 2 cut(s) 995, 1008
AfaI GTAC 3 cut(s) 5, 146, 906
AfiI CCNNNNNNNGG 2 cut(s) 536, 638
AflIII ACRYGT 1 cut(s) 543
AgsI TTSAA 8 cut(s) 316, 550, 657, 704, 850, 1199, 1233, 1241
AjnI CCWGG 1 cut(s) 694
AluBI AGCT 7 cut(s) 173, 794, 846, 882, 960, 1120, 1148
AluI AGCT 7 cut(s) 173, 794, 846, 882, 960, 1120, 1148
Alw21I GWGCWC 1 cut(s) 1122
Alw26I GTCTC 1 cut(s) 1317
AlwI GGATC 2 cut(s) 995, 1008
AoxI GGCC 1 cut(s) 130
ApeKI GCWGC 6 cut(s) 422, 443, 467, 751, 1020, 1169
ArsI GACNNNNNNTTYG 2 cut(s) 150, 182
AseI ATTAAT 1 cut(s) 453
AspA2I CCTAGG 1 cut(s) 1157
AspS9I GGNCC 1 cut(s) 818
AsuHPI GGTGA 3 cut(s) 328, 360, 1283
AvaII GGWCC 1 cut(s) 818
AvrII CCTAGG 1 cut(s) 1157
BamHI GGATCC 1 cut(s) 1000
BanI GGYRCC 2 cut(s) 512, 641
BanII GRGCYC 2 cut(s) 782, 1122
Bbv12I GWGCWC 1 cut(s) 1122
BbvI GCAGC 6 cut(s) 409, 430, 454, 763, 1032, 1156
BccI CCATC 4 cut(s) 614, 823, 1040, 1103
BciT130I CCWGG 1 cut(s) 696
BciVI GTATCC 3 cut(s) 387, 533, 1064
BclI TGATCA 4 cut(s) 67, 177, 238, 835
BcoDI GTCTC 1 cut(s) 1317
BfaI CTAG 6 cut(s) 288, 300, 372, 953, 1139, 1158
BfuI GTATCC 3 cut(s) 387, 533, 1064
BisI GCNGC 6 cut(s) 423, 444, 468, 752, 1021, 1170
BlnI CCTAGG 1 cut(s) 1157
BlsI GCNGC 6 cut(s) 424, 445, 469, 753, 1022, 1171
Bme1390I CCNGG 1 cut(s) 696
Bme18I GGWCC 1 cut(s) 818
BmgT120I GGNCC 1 cut(s) 818
BmiI GGNNCC 5 cut(s) 514, 643, 1002, 1089, 1155
BmrFI CCNGG 1 cut(s) 696
BmsI GCATC 1 cut(s) 358
BpmI CTGGAG 1 cut(s) 1125
BpuEI CTTGAG 2 cut(s) 457, 862
BsaBI GATNNNNATC 2 cut(s) 113, 1077
BsaJI CCNNGG 1 cut(s) 1157
Bsc4I CCNNNNNNNGG 2 cut(s) 536, 638
Bse1I ACTGG 1 cut(s) 1224
Bse8I GATNNNNATC 2 cut(s) 113, 1077
BseBI CCWGG 1 cut(s) 696
BseDI CCNNGG 1 cut(s) 1157
BseGI GGATG 1 cut(s) 932
BseJI GATNNNNATC 2 cut(s) 113, 1077
BseLI CCNNNNNNNGG 2 cut(s) 536, 638
BseMII CTCAG 6 cut(s) 132, 533, 689, 731, 746, 1135
BseNI ACTGG 1 cut(s) 1224
BseRI GAGGAG 1 cut(s) 239
BseXI GCAGC 6 cut(s) 409, 430, 454, 763, 1032, 1156
BsgI GTGCAG 1 cut(s) 567
BshFI GGCC 1 cut(s) 132
BshNI GGYRCC 2 cut(s) 512, 641
BsiHKAI GWGCWC 1 cut(s) 1122
BslFI GGGAC 1 cut(s) 1022
BslI CCNNNNNNNGG 2 cut(s) 536, 638
BsmAI GTCTC 1 cut(s) 1317
BsmBI CGTCTC 1 cut(s) 1317
BsmFI GGGAC 1 cut(s) 1022
BsmI GAATGC 2 cut(s) 205, 273
BsnI GGCC 1 cut(s) 132
Bsp1286I GDGCHC 2 cut(s) 782, 1122
Bsp1407I TGTACA 1 cut(s) 3
Bsp143I GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
BspANI GGCC 1 cut(s) 132
BspCNI CTCAG 6 cut(s) 133, 532, 688, 730, 745, 1134
BspLI GGNNCC 5 cut(s) 514, 643, 1002, 1089, 1155
BspPI GGATC 2 cut(s) 995, 1008
BspT107I GGYRCC 2 cut(s) 512, 641
BsrGI TGTACA 1 cut(s) 3
BsrI ACTGG 1 cut(s) 1224
BssECI CCNNGG 1 cut(s) 1157
BssMI GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
BssNAI GTATAC 1 cut(s) 305
BssT1I CCWWGG 1 cut(s) 1157
Bst1107I GTATAC 1 cut(s) 305
Bst2UI CCWGG 1 cut(s) 696
Bst4CI ACNGT 3 cut(s) 277, 346, 1135
Bst6I CTCTTC 1 cut(s) 99
BstAUI TGTACA 1 cut(s) 3
BstDEI CTNAG 9 cut(s) 141, 186, 519, 675, 717, 732, 810, 1121, 1286
BstF5I GGATG 1 cut(s) 932
BstKTI GATC 6 cut(s) 70, 180, 241, 414, 838, 1003
BstMAI GTCTC 1 cut(s) 1317
BstMBI GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
BstMWI GCNNNNNNNGC 1 cut(s) 1269
BstNI CCWGG 1 cut(s) 696
BstNSI RCATGY 1 cut(s) 547
BstSCI CCNGG 1 cut(s) 694
BstV1I GCAGC 6 cut(s) 409, 430, 454, 763, 1032, 1156
BstX2I RGATCY 1 cut(s) 1000
BstYI RGATCY 1 cut(s) 1000
BstZ17I GTATAC 1 cut(s) 305
BsuI GTATCC 3 cut(s) 387, 533, 1064
BsuRI GGCC 1 cut(s) 132
BtgZI GCGATG 1 cut(s) 842
BtsCI GGATG 1 cut(s) 932
Cfr13I GGNCC 1 cut(s) 818
Csp6I GTAC 3 cut(s) 4, 145, 905
CviAII CATG 7 cut(s) 148, 409, 487, 544, 670, 1010, 1323
CviQI GTAC 3 cut(s) 4, 145, 905
DdeI CTNAG 9 cut(s) 141, 186, 519, 675, 717, 732, 810, 1121, 1286
DpnI GATC 6 cut(s) 69, 179, 240, 413, 837, 1002
DpnII GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
Eam1104I CTCTTC 1 cut(s) 99
EarI CTCTTC 1 cut(s) 99
Ecl136II GAGCTC 1 cut(s) 1120
Eco130I CCWWGG 1 cut(s) 1157
Eco24I GRGCYC 2 cut(s) 782, 1122
Eco47I GGWCC 1 cut(s) 818
Eco53kI GAGCTC 1 cut(s) 1120
EcoICRI GAGCTC 1 cut(s) 1120
EcoRII CCWGG 1 cut(s) 694
EcoT14I CCWWGG 1 cut(s) 1157
EcoT38I GRGCYC 2 cut(s) 782, 1122
ErhI CCWWGG 1 cut(s) 1157
Esp3I CGTCTC 1 cut(s) 1317
FaeI CATG 7 cut(s) 151, 412, 490, 547, 673, 1013, 1326
FalI AAGNNNNNCTT 2 cut(s) 747, 779
FaqI GGGAC 1 cut(s) 1022
FatI CATG 7 cut(s) 147, 408, 486, 543, 669, 1009, 1322
FbaI TGATCA 4 cut(s) 67, 177, 238, 835
FblI GTMKAC 2 cut(s) 230, 304
Fnu4HI GCNGC 6 cut(s) 423, 444, 468, 752, 1021, 1170
FokI GGATG 1 cut(s) 919
FriOI GRGCYC 2 cut(s) 782, 1122
Fsp4HI GCNGC 6 cut(s) 423, 444, 468, 752, 1021, 1170
FspBI CTAG 6 cut(s) 288, 300, 372, 953, 1139, 1158
GluI GCNGC 6 cut(s) 423, 444, 468, 752, 1021, 1170
GsuI CTGGAG 1 cut(s) 1125
HaeIII GGCC 1 cut(s) 132
Hin1II CATG 7 cut(s) 151, 412, 490, 547, 673, 1013, 1326
HincII GTYRAC 1 cut(s) 75
HindII GTYRAC 1 cut(s) 75
HinfI GANTC 7 cut(s) 227, 490, 666, 896, 968, 1073, 1142
HpaI GTTAAC 1 cut(s) 75
HphI GGTGA 3 cut(s) 328, 360, 1283
Hpy166II GTNNAC 6 cut(s) 6, 75, 231, 305, 1131, 1217
Hpy188I TCNGA 7 cut(s) 15, 142, 177, 522, 678, 735, 1192
Hpy188III TCNNGA 5 cut(s) 98, 482, 537, 893, 1104
Hpy8I GTNNAC 6 cut(s) 6, 75, 231, 305, 1131, 1217
HpyAV CCTTC 2 cut(s) 143, 1050
HpyCH4III ACNGT 3 cut(s) 277, 346, 1135
HpyCH4IV ACGT 1 cut(s) 1310
HpyCH4V TGCA 9 cut(s) 205, 259, 349, 584, 608, 983, 1009, 1064, 1172
HpyF10VI GCNNNNNNNGC 1 cut(s) 1269
HpyF3I CTNAG 9 cut(s) 141, 186, 519, 675, 717, 732, 810, 1121, 1286
HpySE526I ACGT 1 cut(s) 1310
Hsp92II CATG 7 cut(s) 151, 412, 490, 547, 673, 1013, 1326
Ksp22I TGATCA 4 cut(s) 67, 177, 238, 835
KspAI GTTAAC 1 cut(s) 75
Kzo9I GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
LmnI GCTCC 1 cut(s) 1087
Lsp1109I GCAGC 6 cut(s) 409, 430, 454, 763, 1032, 1156
LweI GCATC 1 cut(s) 358
MaeI CTAG 6 cut(s) 288, 300, 372, 953, 1139, 1158
MaeII ACGT 1 cut(s) 1310
MaeIII GTNAC 4 cut(s) 686, 744, 862, 1289
MalI GATC 6 cut(s) 69, 179, 240, 413, 837, 1002
MboI GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
MboII GAAGA 2 cut(s) 116, 1082
MfeI CAATTG 1 cut(s) 909
MflI RGATCY 1 cut(s) 1000
MhlI GDGCHC 2 cut(s) 782, 1122
MlyI GAGTC 2 cut(s) 236, 1151
MmeI TCCRAC 2 cut(s) 845, 953
MnlI CCTC 8 cut(s) 148, 217, 349, 457, 481, 526, 621, 642
MseI TTAA 5 cut(s) 74, 126, 357, 453, 948
MslI CAYNNNNRTG 1 cut(s) 357
MspR9I CCNGG 1 cut(s) 696
MunI CAATTG 1 cut(s) 909
Mva1269I GAATGC 2 cut(s) 205, 273
MvaI CCWGG 1 cut(s) 696
MwoI GCNNNNNNNGC 1 cut(s) 1269
NdeII GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
NlaIII CATG 7 cut(s) 151, 412, 490, 547, 673, 1013, 1326
NlaIV GGNNCC 5 cut(s) 514, 643, 1002, 1089, 1155
NmuCI GTSAC 2 cut(s) 744, 1289
NspI RCATGY 1 cut(s) 547
PciI ACATGT 1 cut(s) 543
PctI GAATGC 2 cut(s) 205, 273
PfeI GAWTC 5 cut(s) 490, 666, 896, 968, 1073
PkrI GCNGC 6 cut(s) 424, 445, 469, 753, 1022, 1171
PleI GAGTC 2 cut(s) 235, 1150
PpsI GAGTC 2 cut(s) 235, 1150
PscI ACATGT 1 cut(s) 543
PshBI ATTAAT 1 cut(s) 453
PsiI TTATAA 1 cut(s) 650
Psp124BI GAGCTC 1 cut(s) 1122
Psp6I CCWGG 1 cut(s) 694
PspGI CCWGG 1 cut(s) 694
PspN4I GGNNCC 5 cut(s) 514, 643, 1002, 1089, 1155
PspPI GGNCC 1 cut(s) 818
PsuI RGATCY 1 cut(s) 1000
RsaI GTAC 3 cut(s) 5, 146, 906
RsaNI GTAC 3 cut(s) 4, 145, 905
RseI CAYNNNNRTG 1 cut(s) 357
SacI GAGCTC 1 cut(s) 1122
SaqAI TTAA 5 cut(s) 74, 126, 357, 453, 948
SatI GCNGC 6 cut(s) 423, 444, 468, 752, 1021, 1170
Sau3AI GATC 6 cut(s) 67, 177, 238, 411, 835, 1000
Sau96I GGNCC 1 cut(s) 818
SchI GAGTC 2 cut(s) 236, 1151
ScrFI CCNGG 1 cut(s) 696
SduI GDGCHC 2 cut(s) 782, 1122
SfaNI GCATC 1 cut(s) 358
SinI GGWCC 1 cut(s) 818
SmiMI CAYNNNNRTG 1 cut(s) 357
SmlI CTYRAG 2 cut(s) 472, 877
SmoI CTYRAG 2 cut(s) 472, 877
SspI AATATT 1 cut(s) 924
SspMI CTAG 6 cut(s) 288, 300, 372, 953, 1139, 1158
SstI GAGCTC 1 cut(s) 1122
StyD4I CCNGG 1 cut(s) 694
StyI CCWWGG 1 cut(s) 1157
TaaI ACNGT 3 cut(s) 277, 346, 1135
TaiI ACGT 1 cut(s) 1313
TatI WGTACW 2 cut(s) 3, 144
TfiI GAWTC 5 cut(s) 490, 666, 896, 968, 1073
Tru1I TTAA 5 cut(s) 74, 126, 357, 453, 948
Tru9I TTAA 5 cut(s) 74, 126, 357, 453, 948
TseFI GTSAC 2 cut(s) 744, 1289
TseI GCWGC 6 cut(s) 422, 443, 467, 751, 1020, 1169
Tsp45I GTSAC 2 cut(s) 744, 1289
TspDTI ATGAA 8 cut(s) 80, 117, 209, 616, 658, 964, 1002, 1065
VpaK11BI GGWCC 1 cut(s) 818
VspI ATTAAT 1 cut(s) 453
XceI RCATGY 1 cut(s) 547
XmaJI CCTAGG 1 cut(s) 1157
XmiI GTMKAC 2 cut(s) 230, 304
XspI CTAG 6 cut(s) 288, 300, 372, 953, 1139, 1158
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.