RchiOBHm_Chr6g0250721

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0022627
Physical Location & Seq
Reverse (-)
6099967 .. 6100692
726 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ22473

Sequence Viewer

Length: 726 bp
ATGAATCCTACTTCATTATACCAAGCTTATGAATTAGCAACAATTTTTGAGGAGAAATACTTGGTACCCAAACGCTCTCAACCACAACAGTACTATACGAGACCCAACTTCTCAGAGGTTGGTCCTCAACATAGAGAAAACAACCTTGGTGGTAGACACCAAACCTCAATTCCTGTTAAACCTAAAGGGACATCAATTGACCATAACAACAAATGGTCACAAGTGGATTATCATAACAGGAGAGCTAGGGGACATTGTTTCTTTTGCGATAAGCCATACTCTGGTGGACATGTTTGCAAAAAACCTCACAATCAAGGCAGAGCAATACTCATTGAAGGGGTAACTACATCGGAAGTCAAGCCTGAAGAGCAAGCCTTCGAAGATTTAATTGATATGAGTGAACCTGAGGCTGAAATTGAAGAACCTCATATTGCTGTACAGGTAATTGGTGGAGTTGAAAATCCAATGACTATCACTATGCCAAAATCCTTATCAGACGACAGACAGAAACTGTTGTCTGATTTGGAGTGCCACCGTTGTAGAGCGAGCCGTTGTCTGTTGAAAATTCAAACGGTGGAACACAGTTGTCTGATAAACAAACAGGCAACGGGTATGTGTTATAACTGTTGTGTGATGGCTCGACAGATAGCTCGGCAGATGCCATGCGCAGCAGTTGAAGCGCTGCCTTCAGACAACAGTGCTTGGTTTCAAGCTGTTGTATGTTAA
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

241

Amino Acids

27.29

Weight (kDa)

6.78

Isoelectric Point (pI)

57.48

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0022627)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0321881 RchiOBHm_Chr6g0250721 RchiOBHm_Chr6g0273001
rosa_roxburghii Rroxscaffold_1G00027020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 621
Acc16I TGCGCA 1 cut(s) 667
Acc65I GGTACC 1 cut(s) 64
AccB1I GGYRCC 1 cut(s) 64
AccB7I CCANNNNNTGG 1 cut(s) 281
AccI GTMKAC 1 cut(s) 154
AcsI RAATTY 1 cut(s) 564
AcuI CTGAAG 2 cut(s) 384, 672
AfaI GTAC 3 cut(s) 66, 92, 438
AfeI AGCGCT 1 cut(s) 681
AfiI CCNNNNNNNGG 1 cut(s) 281
AflIII ACRYGT 1 cut(s) 289
AgsI TTSAA 7 cut(s) 335, 419, 458, 562, 569, 677, 710
AjuI GAANNNNNNNTTGG 4 cut(s) 129, 153, 161, 185
AluBI AGCT 4 cut(s) 26, 245, 650, 713
AluI AGCT 4 cut(s) 26, 245, 650, 713
Alw26I GTCTC 1 cut(s) 94
AlwNI CAGNNNCTG 1 cut(s) 511
Aor51HI AGCGCT 1 cut(s) 681
ApeKI GCWGC 2 cut(s) 668, 682
ApoI RAATTY 1 cut(s) 564
Asp718I GGTACC 1 cut(s) 64
AspLEI GCGC 2 cut(s) 668, 682
AspS9I GGNCC 1 cut(s) 122
AsuII TTCGAA 1 cut(s) 378
AvaII GGWCC 1 cut(s) 122
AxyI CCTNAGG 1 cut(s) 405
BanI GGYRCC 1 cut(s) 64
BbvI GCAGC 2 cut(s) 669, 680
BccI CCATC 1 cut(s) 628
BceAI ACGGC 1 cut(s) 534
BcoDI GTCTC 1 cut(s) 94
BfaI CTAG 1 cut(s) 246
BfoI RGCGCY 1 cut(s) 683
BisI GCNGC 2 cut(s) 669, 683
BlsI GCNGC 2 cut(s) 670, 684
BmcAI AGTACT 1 cut(s) 92
Bme18I GGWCC 1 cut(s) 122
BmgT120I GGNCC 1 cut(s) 122
BmiI GGNNCC 1 cut(s) 66
BmsI GCATC 1 cut(s) 648
BplI GAGNNNNNCTC 2 cut(s) 312, 344
Bpu14I TTCGAA 1 cut(s) 378
BsaI GGTCTC 1 cut(s) 94
BsaJI CCNNGG 1 cut(s) 145
Bsc4I CCNNNNNNNGG 1 cut(s) 281
Bse21I CCTNAGG 1 cut(s) 405
BseDI CCNNGG 1 cut(s) 145
BseLI CCNNNNNNNGG 1 cut(s) 281
BseMII CTCAG 2 cut(s) 126, 396
BseRI GAGGAG 1 cut(s) 65
BseXI GCAGC 2 cut(s) 669, 680
BshNI GGYRCC 1 cut(s) 64
BslFI GGGAC 2 cut(s) 202, 264
BslI CCNNNNNNNGG 1 cut(s) 281
BsmAI GTCTC 1 cut(s) 94
BsmFI GGGAC 2 cut(s) 202, 264
Bso31I GGTCTC 1 cut(s) 94
Bsp119I TTCGAA 1 cut(s) 378
Bsp1407I TGTACA 1 cut(s) 436
BspCNI CTCAG 2 cut(s) 125, 397
BspLI GGNNCC 1 cut(s) 66
BspQI GCTCTTC 1 cut(s) 360
BspT104I TTCGAA 1 cut(s) 378
BspT107I GGYRCC 1 cut(s) 64
BspTNI GGTCTC 1 cut(s) 94
BsrGI TGTACA 1 cut(s) 436
BssECI CCNNGG 1 cut(s) 145
BssT1I CCWWGG 1 cut(s) 145
Bst4CI ACNGT 7 cut(s) 90, 513, 536, 574, 584, 626, 698
Bst6I CTCTTC 1 cut(s) 360
BstAUI TGTACA 1 cut(s) 436
BstBI TTCGAA 1 cut(s) 378
BstC8I GCNNGC 2 cut(s) 372, 547
BstDEI CTNAG 2 cut(s) 112, 405
BstH2I RGCGCY 1 cut(s) 683
BstHHI GCGC 2 cut(s) 668, 682
BstMAI GTCTC 1 cut(s) 94
BstMWI GCNNNNNNNGC 2 cut(s) 367, 677
BstNSI RCATGY 1 cut(s) 293
BstV1I GCAGC 2 cut(s) 669, 680
Bsu36I CCTNAGG 1 cut(s) 405
BtsIMutI CAGTG 1 cut(s) 703
Cac8I GCNNGC 2 cut(s) 372, 547
CaiI CAGNNNCTG 1 cut(s) 511
CfoI GCGC 2 cut(s) 668, 682
Cfr13I GGNCC 1 cut(s) 122
Csp6I GTAC 3 cut(s) 65, 91, 437
CspCI CAANNNNNGTGG 2 cut(s) 130, 165
CviAII CATG 2 cut(s) 290, 663
CviQI GTAC 3 cut(s) 65, 91, 437
DdeI CTNAG 2 cut(s) 112, 405
Eam1104I CTCTTC 1 cut(s) 360
EarI CTCTTC 1 cut(s) 360
Eco130I CCWWGG 1 cut(s) 145
Eco31I GGTCTC 1 cut(s) 94
Eco47I GGWCC 1 cut(s) 122
Eco47III AGCGCT 1 cut(s) 681
Eco57I CTGAAG 2 cut(s) 384, 672
Eco81I CCTNAGG 1 cut(s) 405
EcoT14I CCWWGG 1 cut(s) 145
ErhI CCWWGG 1 cut(s) 145
FaeI CATG 2 cut(s) 293, 666
FaqI GGGAC 2 cut(s) 202, 264
FatI CATG 2 cut(s) 289, 662
FblI GTMKAC 1 cut(s) 154
Fnu4HI GCNGC 2 cut(s) 669, 683
Fsp4HI GCNGC 2 cut(s) 669, 683
FspBI CTAG 1 cut(s) 246
FspI TGCGCA 1 cut(s) 667
GlaI GCGC 2 cut(s) 667, 681
GluI GCNGC 2 cut(s) 669, 683
HaeII RGCGCY 1 cut(s) 683
HhaI GCGC 2 cut(s) 668, 682
Hin1II CATG 2 cut(s) 293, 666
Hin6I GCGC 2 cut(s) 666, 680
HinP1I GCGC 2 cut(s) 666, 680
HindIII AAGCTT 1 cut(s) 24
HinfI GANTC 1 cut(s) 4
Hpy166II GTNNAC 3 cut(s) 155, 287, 401
Hpy188I TCNGA 6 cut(s) 115, 352, 496, 520, 591, 691
Hpy8I GTNNAC 3 cut(s) 155, 287, 401
HpyAV CCTTC 3 cut(s) 329, 385, 696
HpyCH4III ACNGT 7 cut(s) 90, 513, 536, 574, 584, 626, 698
HpyCH4V TGCA 1 cut(s) 297
HpyF10VI GCNNNNNNNGC 2 cut(s) 367, 677
HpyF3I CTNAG 2 cut(s) 112, 405
Hsp92II CATG 2 cut(s) 293, 666
HspAI GCGC 2 cut(s) 666, 680
KpnI GGTACC 1 cut(s) 68
LguI GCTCTTC 1 cut(s) 360
LpnPI CCDG 7 cut(s) 186, 223, 267, 375, 417, 425, 587
Lsp1109I GCAGC 2 cut(s) 669, 680
LweI GCATC 1 cut(s) 648
MaeI CTAG 1 cut(s) 246
MaeIII GTNAC 2 cut(s) 216, 340
MboII GAAGA 3 cut(s) 377, 392, 431
MfeI CAATTG 1 cut(s) 195
MluCI AATT 8 cut(s) 32, 42, 168, 195, 387, 414, 444, 564
MnlI CCTC 7 cut(s) 43, 109, 135, 175, 315, 400, 435
MseI TTAA 3 cut(s) 177, 386, 724
MunI CAATTG 1 cut(s) 195
MwoI GCNNNNNNNGC 2 cut(s) 367, 677
NlaIII CATG 2 cut(s) 293, 666
NlaIV GGNNCC 1 cut(s) 66
NmeAIII GCCGAG 1 cut(s) 631
NmuCI GTSAC 1 cut(s) 216
NsbI TGCGCA 1 cut(s) 667
NspI RCATGY 1 cut(s) 293
NspV TTCGAA 1 cut(s) 378
PciI ACATGT 1 cut(s) 289
PciSI GCTCTTC 1 cut(s) 360
PfeI GAWTC 1 cut(s) 4
PflMI CCANNNNNTGG 1 cut(s) 281
PkrI GCNGC 2 cut(s) 670, 684
PscI ACATGT 1 cut(s) 289
PsiI TTATAA 1 cut(s) 621
PspN4I GGNNCC 1 cut(s) 66
PspPI GGNCC 1 cut(s) 122
PstNI CAGNNNCTG 1 cut(s) 511
RsaI GTAC 3 cut(s) 66, 92, 438
RsaNI GTAC 3 cut(s) 65, 91, 437
SapI GCTCTTC 1 cut(s) 360
SaqAI TTAA 3 cut(s) 177, 386, 724
SatI GCNGC 2 cut(s) 669, 683
Sau96I GGNCC 1 cut(s) 122
ScaI AGTACT 1 cut(s) 92
SfaNI GCATC 1 cut(s) 648
SfuI TTCGAA 1 cut(s) 378
SinI GGWCC 1 cut(s) 122
Sse9I AATT 8 cut(s) 32, 42, 168, 195, 387, 414, 444, 564
SspMI CTAG 1 cut(s) 246
StyI CCWWGG 1 cut(s) 145
TaaI ACNGT 7 cut(s) 90, 513, 536, 574, 584, 626, 698
TaqI TCGA 2 cut(s) 378, 640
TasI AATT 8 cut(s) 32, 42, 168, 195, 387, 414, 444, 564
TatI WGTACW 2 cut(s) 90, 436
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 3 cut(s) 177, 386, 724
Tru9I TTAA 3 cut(s) 177, 386, 724
TscAI CASTG 1 cut(s) 703
TseFI GTSAC 1 cut(s) 216
TseI GCWGC 2 cut(s) 668, 682
Tsp45I GTSAC 1 cut(s) 216
TspDTI ATGAA 2 cut(s) 17, 45
TspRI CASTG 1 cut(s) 703
Van91I CCANNNNNTGG 1 cut(s) 281
VpaK11BI GGWCC 1 cut(s) 122
XapI RAATTY 1 cut(s) 564
XceI RCATGY 1 cut(s) 293
XmiI GTMKAC 1 cut(s) 154
XspI CTAG 1 cut(s) 246
ZrmI AGTACT 1 cut(s) 92
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.