RchiOBHm_Chr7g0236571

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0000437
Physical Location & Seq
Reverse (-)
61284876 .. 61285667
792 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ21200

Sequence Viewer

Length: 531 bp
ATGAACTCTTCGCAAGCATACGAATCGTTGTCAAGTAAGGGAAGTCAATGGCGCCGTTTCCGGGGATTAGGGTCTTCGGATCTTAATCCCTTGGTGCTTATTGTTCTAGTGTTTCTTTATAGGTGTATGAACAACACGTTACTACCTATCAATTTGAGAAGTGGTCACACTTTTCAAAGACTTCCTAGACAAAGGCCAAGGAATCGTTCACGAACACCACCAAGGCCAAGAGTACCTCCAAGAAATCCCTCACCGAGTCCGATTAGATCACCGGTTAGAGAGATGGCGGAAAGACCTATTCGGGAGTTCTCTAGACCTTCCATGACCAATACGGCATCATGCTTAGTACTTCCGGATAGAGATGTGGACTTTGAGATCAAGCTACAACAATTGAGCATCTTACCTATTTTCCGTGGAATGCCATCCGAGAAGGCCATCAACCACATGCAAGATTTTGAGGCGATTGTAAGCACTATGTCAAAGGGTGGACTTCCGGAAGCTACAACCAAGGAGTATACGATCATGGGATGA
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
RVT_1 Retrotrans_gag rve

Protein Analysis

176

Amino Acids

20.06

Weight (kDa)

10.97

Isoelectric Point (pI)

65.73

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000437)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G06105
fragaria_vesca FvH4_1g09709 FvH4_4g02101 FvH4_4g08975 FvH4_6g23372 FvH4_6g39851 FvH4_c1g00300
malus_domestica MD01G1176100.v1.1 MD09G1284900.v1.1 MD15G1306600.v1.1
prunus_persica Prupe.1G227700_v2.0.a1
pyrus_communis pycom01g00630 pycom01g01020 pycom01g01690 pycom01g01760 pycom01g04190 pycom01g04400 pycom02g18130 pycom03g10160 pycom05g06370 pycom05g08930 pycom06g05590 pycom10g06320 pycom11g14330 pycom11g15320 pycom11g16240 pycom12416g00050 pycom12420g00010 pycom12420g00120 pycom12426g00180 pycom12426g00710 pycom12531g00010 pycom1256g00020 pycom1256g00050 pycom1341g00030 pycom1353g00030 pycom13g23070 pycom13g23210 pycom13g26260 pycom13g26370 pycom13g26470 pycom13g26980 pycom14g08550 pycom14g08850 pycom1534g00040 pycom15g28760 pycom15g31230 pycom1604g00040 pycom16g21900 pycom16g26030 pycom1739g00020 pycom1739g00050 pycom17g12970 pycom17g17960 pycom17g18300 pycom17g18650 pycom2172g00020 pycom2438g00020 pycom436g00370 pycom436g00390 pycom576g00050 pycom76g00020
rosa_chinensis RchiOBHm_Chr1g0320811 RchiOBHm_Chr2g0135321 RchiOBHm_Chr3g0485721 RchiOBHm_Chr7g0236571
rosa_multiflora Rmu_sc0000185.1_g000007 Rmu_sc0002094.1_g000030 Rmu_sc0002764.1_g000007 Rmu_sc0002809.1_g000014 Rmu_sc0003005.1_g000007 Rmu_sc0003798.1_g000005 Rmu_sc0004646.1_g000027 Rmu_sc0004665.1_g000009 Rmu_sc0004818.1_g000001 Rmu_sc0004988.1_g000031 Rmu_sc0006373.1_g000007 Rmu_sc0007142.1_g000015 Rmu_sc0009930.1_g000001 Rmu_sc0011451.1_g000001 Rmu_sc0020424.1_g000001 Rmu_sc0036944.1_g000001 Rmu_ssc0000062.1_g000010
rosa_roxburghii Rroxscaffold_2G00123930 Rroxscaffold_3G00231480 Rroxscaffold_6G00413880
rosa_rugosa Rorug04G0084800
rosa_samantha Rh3BG150500 Rh6DG232400
rosa_wichuraiana Rw2G018400 Rw3G027860 Rw4G021220 Rw6G020670 Rw6G037970

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 51
AccI GTMKAC 1 cut(s) 515
AccIII TCCGGA 2 cut(s) 352, 493
AciI CCGC 1 cut(s) 287
AclWI GGATC 1 cut(s) 87
AcyI GRCGYC 1 cut(s) 52
AfaI GTAC 2 cut(s) 234, 348
AfiI CCNNNNNNNGG 1 cut(s) 61
AflIII ACRYGT 1 cut(s) 135
AgeI ACCGGT 1 cut(s) 271
AgsI TTSAA 1 cut(s) 176
AjuI GAANNNNNNNTTGG 2 cut(s) 190, 222
AluBI AGCT 2 cut(s) 382, 500
AluI AGCT 2 cut(s) 382, 500
AlwI GGATC 1 cut(s) 87
Aor13HI TCCGGA 2 cut(s) 352, 493
AoxI GGCC 3 cut(s) 194, 224, 432
AsiGI ACCGGT 1 cut(s) 271
AspLEI GCGC 1 cut(s) 54
AsuC2I CCSGG 1 cut(s) 62
AsuHPI GGTGA 2 cut(s) 243, 261
BanI GGYRCC 1 cut(s) 51
BbsI GAAGAC 1 cut(s) 66
BccI CCATC 3 cut(s) 277, 430, 443
BceAI ACGGC 2 cut(s) 39, 348
BcgI CGANNNNNNTGC 2 cut(s) 6, 40
BcnI CCSGG 1 cut(s) 62
BfaI CTAG 3 cut(s) 107, 186, 312
BfoI RGCGCY 1 cut(s) 55
BmcAI AGTACT 1 cut(s) 348
Bme1390I CCNGG 1 cut(s) 62
BmiI GGNNCC 1 cut(s) 53
BmrFI CCNGG 1 cut(s) 62
BmsI GCATC 2 cut(s) 344, 405
BpiI GAAGAC 1 cut(s) 66
BpuMI CCSGG 1 cut(s) 62
BsaBI GATNNNNATC 1 cut(s) 84
BsaHI GRCGYC 1 cut(s) 52
BsaJI CCNNGG 6 cut(s) 61, 90, 197, 221, 412, 507
BsaWI WCCGGW 3 cut(s) 271, 352, 493
Bsc4I CCNNNNNNNGG 1 cut(s) 61
Bse118I RCCGGY 1 cut(s) 271
Bse8I GATNNNNATC 1 cut(s) 84
BseAI TCCGGA 2 cut(s) 352, 493
BseDI CCNNGG 6 cut(s) 61, 90, 197, 221, 412, 507
BseGI GGATG 1 cut(s) 422
BseJI GATNNNNATC 1 cut(s) 84
BseLI CCNNNNNNNGG 1 cut(s) 61
BshFI GGCC 3 cut(s) 196, 226, 434
BshNI GGYRCC 1 cut(s) 51
BshTI ACCGGT 1 cut(s) 271
BsiSI CCGG 4 cut(s) 61, 272, 353, 494
BslI CCNNNNNNNGG 1 cut(s) 61
BsmI GAATGC 1 cut(s) 423
BsnI GGCC 3 cut(s) 196, 226, 434
Bsp13I TCCGGA 2 cut(s) 352, 493
Bsp143I GATC 4 cut(s) 79, 266, 375, 519
BspACI CCGC 1 cut(s) 287
BspANI GGCC 3 cut(s) 196, 226, 434
BspEI TCCGGA 2 cut(s) 352, 493
BspLI GGNNCC 1 cut(s) 53
BspPI GGATC 1 cut(s) 87
BspT107I GGYRCC 1 cut(s) 51
BsrFI RCCGGY 1 cut(s) 271
BssAI RCCGGY 1 cut(s) 271
BssECI CCNNGG 6 cut(s) 61, 90, 197, 221, 412, 507
BssMI GATC 4 cut(s) 79, 266, 375, 519
BssNAI GTATAC 1 cut(s) 516
BssNI GRCGYC 1 cut(s) 52
BssT1I CCWWGG 4 cut(s) 90, 197, 221, 507
Bst1107I GTATAC 1 cut(s) 516
Bst6I CTCTTC 1 cut(s) 13
BstACI GRCGYC 1 cut(s) 52
BstC8I GCNNGC 1 cut(s) 15
BstDEI CTNAG 1 cut(s) 343
BstDSI CCRYGG 1 cut(s) 412
BstF5I GGATG 1 cut(s) 422
BstH2I RGCGCY 1 cut(s) 55
BstHHI GCGC 1 cut(s) 54
BstKTI GATC 4 cut(s) 82, 269, 378, 522
BstMBI GATC 4 cut(s) 79, 266, 375, 519
BstNSI RCATGY 1 cut(s) 448
BstSCI CCNGG 1 cut(s) 60
BstV2I GAAGAC 1 cut(s) 66
BstX2I RGATCY 1 cut(s) 79
BstYI RGATCY 1 cut(s) 79
BstZ17I GTATAC 1 cut(s) 516
BsuRI GGCC 3 cut(s) 196, 226, 434
BtgI CCRYGG 1 cut(s) 412
BtsCI GGATG 1 cut(s) 422
Cac8I GCNNGC 1 cut(s) 15
CfoI GCGC 1 cut(s) 54
Cfr10I RCCGGY 1 cut(s) 271
Csp6I GTAC 2 cut(s) 233, 347
CspAI ACCGGT 1 cut(s) 271
CviAII CATG 4 cut(s) 322, 339, 445, 523
CviJI RGCY 5 cut(s) 196, 226, 382, 434, 500
CviKI_1 RGCY 5 cut(s) 196, 226, 382, 434, 500
CviQI GTAC 2 cut(s) 233, 347
DdeI CTNAG 1 cut(s) 343
DinI GGCGCC 1 cut(s) 53
DpnI GATC 4 cut(s) 81, 268, 377, 521
DpnII GATC 4 cut(s) 79, 266, 375, 519
Eam1104I CTCTTC 1 cut(s) 13
EarI CTCTTC 1 cut(s) 13
EciI GGCGGA 1 cut(s) 302
Eco130I CCWWGG 4 cut(s) 90, 197, 221, 507
EcoT14I CCWWGG 4 cut(s) 90, 197, 221, 507
EgeI GGCGCC 1 cut(s) 53
EheI GGCGCC 1 cut(s) 53
ErhI CCWWGG 4 cut(s) 90, 197, 221, 507
FaeI CATG 4 cut(s) 325, 342, 448, 526
FaiI YATR 9 cut(s) 19, 120, 128, 323, 340, 446, 476, 516, 524
FatI CATG 4 cut(s) 321, 338, 444, 522
FblI GTMKAC 1 cut(s) 515
FokI GGATG 1 cut(s) 409
FspBI CTAG 3 cut(s) 107, 186, 312
GlaI GCGC 1 cut(s) 53
HaeII RGCGCY 1 cut(s) 55
HaeIII GGCC 3 cut(s) 196, 226, 434
HapII CCGG 4 cut(s) 61, 272, 353, 494
HhaI GCGC 1 cut(s) 54
Hin1I GRCGYC 1 cut(s) 52
Hin1II CATG 4 cut(s) 325, 342, 448, 526
Hin6I GCGC 1 cut(s) 52
HinP1I GCGC 1 cut(s) 52
HinfI GANTC 3 cut(s) 23, 202, 256
HpaII CCGG 4 cut(s) 61, 272, 353, 494
HphI GGTGA 2 cut(s) 243, 261
Hpy166II GTNNAC 4 cut(s) 209, 367, 488, 516
Hpy188I TCNGA 3 cut(s) 79, 261, 427
Hpy188III TCNNGA 5 cut(s) 210, 302, 312, 353, 494
Hpy8I GTNNAC 4 cut(s) 209, 367, 488, 516
HpyAV CCTTC 2 cut(s) 327, 424
HpyCH4IV ACGT 1 cut(s) 137
HpyCH4V TGCA 1 cut(s) 448
HpyF3I CTNAG 1 cut(s) 343
HpySE526I ACGT 1 cut(s) 137
Hsp92I GRCGYC 1 cut(s) 52
Hsp92II CATG 4 cut(s) 325, 342, 448, 526
HspAI GCGC 1 cut(s) 52
KasI GGCGCC 1 cut(s) 51
Kpn2I TCCGGA 2 cut(s) 352, 493
Kzo9I GATC 4 cut(s) 79, 266, 375, 519
LpnPI CCDG 4 cut(s) 74, 285, 366, 507
LweI GCATC 2 cut(s) 344, 405
MaeI CTAG 3 cut(s) 107, 186, 312
MaeII ACGT 1 cut(s) 137
MaeIII GTNAC 2 cut(s) 138, 164
MalI GATC 4 cut(s) 81, 268, 377, 521
MboI GATC 4 cut(s) 79, 266, 375, 519
MboII GAAGA 1 cut(s) 66
MfeI CAATTG 1 cut(s) 389
MflI RGATCY 1 cut(s) 79
MluCI AATT 2 cut(s) 151, 389
Mly113I GGCGCC 1 cut(s) 52
MlyI GAGTC 1 cut(s) 265
MnlI CCTC 3 cut(s) 246, 259, 451
MroI TCCGGA 2 cut(s) 352, 493
MseI TTAA 1 cut(s) 84
MspI CCGG 4 cut(s) 61, 272, 353, 494
MspR9I CCNGG 1 cut(s) 62
MunI CAATTG 1 cut(s) 389
Mva1269I GAATGC 1 cut(s) 423
NarI GGCGCC 1 cut(s) 52
NciI CCSGG 1 cut(s) 62
NdeII GATC 4 cut(s) 79, 266, 375, 519
NlaIII CATG 4 cut(s) 325, 342, 448, 526
NlaIV GGNNCC 1 cut(s) 53
NmuCI GTSAC 1 cut(s) 164
NspI RCATGY 1 cut(s) 448
PctI GAATGC 1 cut(s) 423
PfeI GAWTC 2 cut(s) 23, 202
PinAI ACCGGT 1 cut(s) 271
PleI GAGTC 1 cut(s) 264
PluTI GGCGCC 1 cut(s) 55
PpsI GAGTC 1 cut(s) 264
PspN4I GGNNCC 1 cut(s) 53
PsuI RGATCY 1 cut(s) 79
RsaI GTAC 2 cut(s) 234, 348
RsaNI GTAC 2 cut(s) 233, 347
SaqAI TTAA 1 cut(s) 84
Sau3AI GATC 4 cut(s) 79, 266, 375, 519
ScaI AGTACT 1 cut(s) 348
SchI GAGTC 1 cut(s) 265
ScrFI CCNGG 1 cut(s) 62
SetI ASST 9 cut(s) 125, 140, 148, 238, 298, 319, 384, 406, 502
SfaNI GCATC 2 cut(s) 344, 405
SfoI GGCGCC 1 cut(s) 53
Sse9I AATT 2 cut(s) 151, 389
SsiI CCGC 1 cut(s) 287
SspDI GGCGCC 1 cut(s) 51
SspMI CTAG 3 cut(s) 107, 186, 312
StyD4I CCNGG 1 cut(s) 60
StyI CCWWGG 4 cut(s) 90, 197, 221, 507
TaiI ACGT 1 cut(s) 140
TasI AATT 2 cut(s) 151, 389
TatI WGTACW 1 cut(s) 346
TfiI GAWTC 2 cut(s) 23, 202
Tru1I TTAA 1 cut(s) 84
Tru9I TTAA 1 cut(s) 84
TseFI GTSAC 1 cut(s) 164
Tsp45I GTSAC 1 cut(s) 164
TspDTI ATGAA 2 cut(s) 17, 143
TspGWI ACGGA 1 cut(s) 401
XbaI TCTAGA 1 cut(s) 311
XceI RCATGY 1 cut(s) 448
XmiI GTMKAC 1 cut(s) 515
XspI CTAG 3 cut(s) 107, 186, 312
ZrmI AGTACT 1 cut(s) 348
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.