RchiOBHm_Chr2g0142791

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000291
Physical Location & Seq
Reverse (-)
60415869 .. 60416376
508 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ51292

Sequence Viewer

Length: 471 bp
ATGGTCCTTGTCAAGCTGCTTCCGGAACAACTCAGGTTCCTGCGCTCCAGAGACAAACGACTATTCAGGAAGTATGAAGGACCGCTCCCCATCATTGCTAAAGTGGGGAAGTGCTCCTACAAAGTCGATATTCCCGCCTGGATGAGAGTTCACCCCGTCTTCCACGTCAGCAACCTCAAGCCGCACCAGCCAGACTGTGAAGATCAAGCACGCAACCAGCCTGTTCGGGAGCACGTCGACATCAGACCACCAAAGCCGAAAGAAGTGGAGGAGATTCTAGCAGAGAGAGTGATCCGAGTGTCAAGGCGCCCATGCCAGCAGTTCCTGGTCAAGTGGAAGAGTCTGGGAGATGAAGAAACTAGTTGGGAGAATGCTGACGTCCTGAAGAAGAAGTTCCAGCAGAAGATTGAAGACTTCAAGATCAAGGCAGTCGTCGAGAGCGCCGACAGCTTAAGTGGGGGAGGATGTTAG
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
Chromo

Protein Analysis

156

Amino Acids

18.15

Weight (kDa)

9.43

Isoelectric Point (pI)

42.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_Tf2-1 PF24626 1 - 62 3.3e-14 Tf2-1-like, SH3 domain
Chromo PF00385 88 - 140 3.8e-12 Chromo (CHRromatin Organisation MOdifier) domain
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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 381
AccB1I GGYRCC 1 cut(s) 306
AccBSI CCGCTC 1 cut(s) 85
AccI GTMKAC 1 cut(s) 237
AccIII TCCGGA 1 cut(s) 22
AciI CCGC 3 cut(s) 83, 135, 182
AclWI GGATC 1 cut(s) 286
AcuI CTGAAG 1 cut(s) 404
AcyI GRCGYC 2 cut(s) 307, 378
AflII CTTAAG 1 cut(s) 451
AgsI TTSAA 2 cut(s) 410, 418
AhlI ACTAGT 1 cut(s) 359
AjiI CACGTC 2 cut(s) 166, 235
AjnI CCWGG 2 cut(s) 137, 324
AluBI AGCT 2 cut(s) 16, 450
AluI AGCT 2 cut(s) 16, 450
Alw21I GWGCWC 2 cut(s) 116, 234
Alw26I GTCTC 1 cut(s) 45
AlwI GGATC 1 cut(s) 286
AlwNI CAGNNNCTG 1 cut(s) 325
Aor13HI TCCGGA 1 cut(s) 22
ApeKI GCWGC 1 cut(s) 16
Asp700I GAANNNNTTC 1 cut(s) 392
AspLEI GCGC 3 cut(s) 45, 309, 443
AspS9I GGNCC 2 cut(s) 4, 80
AsuHPI GGTGA 1 cut(s) 143
AvaII GGWCC 2 cut(s) 4, 80
BanI GGYRCC 1 cut(s) 306
BarI GAAGNNNNNNTAC 2 cut(s) 101, 133
BbsI GAAGAC 2 cut(s) 151, 417
Bbv12I GWGCWC 2 cut(s) 116, 234
BbvI GCAGC 1 cut(s) 3
BccI CCATC 1 cut(s) 98
BciT130I CCWGG 2 cut(s) 139, 326
BcoDI GTCTC 1 cut(s) 45
BcuI ACTAGT 1 cut(s) 359
BfaI CTAG 2 cut(s) 278, 360
BfoI RGCGCY 2 cut(s) 310, 444
BfrI CTTAAG 1 cut(s) 451
BisI GCNGC 2 cut(s) 17, 182
BlsI GCNGC 2 cut(s) 18, 183
Bme1390I CCNGG 2 cut(s) 139, 326
Bme18I GGWCC 2 cut(s) 4, 80
BmgBI CACGTC 2 cut(s) 166, 235
BmgT120I GGNCC 2 cut(s) 4, 80
BmiI GGNNCC 2 cut(s) 38, 308
BmrFI CCNGG 2 cut(s) 139, 326
BpiI GAAGAC 2 cut(s) 151, 417
BpmI CTGGAG 1 cut(s) 31
BpuEI CTTGAG 1 cut(s) 161
BsaHI GRCGYC 2 cut(s) 307, 378
BsaWI WCCGGW 1 cut(s) 22
Bse3DI GCAATG 1 cut(s) 93
BseAI TCCGGA 1 cut(s) 22
BseBI CCWGG 2 cut(s) 139, 326
BseGI GGATG 2 cut(s) 147, 470
BseMI GCAATG 1 cut(s) 93
BseMII CTCAG 1 cut(s) 46
BseRI GAGGAG 1 cut(s) 284
BseXI GCAGC 1 cut(s) 3
BshNI GGYRCC 1 cut(s) 306
BsiHKAI GWGCWC 2 cut(s) 116, 234
BsiSI CCGG 1 cut(s) 23
BsmAI GTCTC 1 cut(s) 45
BsmI GAATGC 1 cut(s) 376
Bsp1286I GDGCHC 2 cut(s) 116, 234
Bsp13I TCCGGA 1 cut(s) 22
Bsp143I GATC 3 cut(s) 202, 291, 420
BspACI CCGC 3 cut(s) 83, 135, 182
BspCNI CTCAG 1 cut(s) 45
BspEI TCCGGA 1 cut(s) 22
BspLI GGNNCC 2 cut(s) 38, 308
BspPI GGATC 1 cut(s) 286
BspT107I GGYRCC 1 cut(s) 306
BspTI CTTAAG 1 cut(s) 451
BsrBI CCGCTC 1 cut(s) 85
BsrDI GCAATG 1 cut(s) 93
BssMI GATC 3 cut(s) 202, 291, 420
BssNI GRCGYC 2 cut(s) 307, 378
Bst2UI CCWGG 2 cut(s) 139, 326
Bst4CI ACNGT 1 cut(s) 197
Bst6I CTCTTC 1 cut(s) 332
BstACI GRCGYC 2 cut(s) 307, 378
BstAFI CTTAAG 1 cut(s) 451
BstC8I GCNNGC 2 cut(s) 211, 317
BstDEI CTNAG 1 cut(s) 32
BstF5I GGATG 2 cut(s) 147, 470
BstH2I RGCGCY 2 cut(s) 310, 444
BstHHI GCGC 3 cut(s) 45, 309, 443
BstKTI GATC 3 cut(s) 205, 294, 423
BstMAI GTCTC 1 cut(s) 45
BstMBI GATC 3 cut(s) 202, 291, 420
BstMWI GCNNNNNNNGC 2 cut(s) 187, 447
BstNI CCWGG 2 cut(s) 139, 326
BstSCI CCNGG 2 cut(s) 137, 324
BstV1I GCAGC 1 cut(s) 3
BstV2I GAAGAC 2 cut(s) 151, 417
BtrI CACGTC 2 cut(s) 166, 235
BtsCI GGATG 2 cut(s) 147, 470
Cac8I GCNNGC 2 cut(s) 211, 317
CaiI CAGNNNCTG 1 cut(s) 325
CfoI GCGC 3 cut(s) 45, 309, 443
Cfr13I GGNCC 2 cut(s) 4, 80
CviAII CATG 1 cut(s) 312
CviJI RGCY 6 cut(s) 16, 181, 190, 220, 256, 450
CviKI_1 RGCY 6 cut(s) 16, 181, 190, 220, 256, 450
DdeI CTNAG 1 cut(s) 32
DinI GGCGCC 1 cut(s) 308
DpnI GATC 3 cut(s) 204, 293, 422
DpnII GATC 3 cut(s) 202, 291, 420
Eam1104I CTCTTC 1 cut(s) 332
EarI CTCTTC 1 cut(s) 332
Eco47I GGWCC 2 cut(s) 4, 80
Eco57I CTGAAG 1 cut(s) 404
EcoRII CCWGG 2 cut(s) 137, 324
EgeI GGCGCC 1 cut(s) 308
EheI GGCGCC 1 cut(s) 308
FaeI CATG 1 cut(s) 315
FaiI YATR 2 cut(s) 75, 313
FatI CATG 1 cut(s) 311
FauI CCCGC 1 cut(s) 142
FblI GTMKAC 1 cut(s) 237
Fnu4HI GCNGC 2 cut(s) 17, 182
FokI GGATG 1 cut(s) 154
Fsp4HI GCNGC 2 cut(s) 17, 182
FspBI CTAG 2 cut(s) 278, 360
GlaI GCGC 3 cut(s) 44, 308, 442
GluI GCNGC 2 cut(s) 17, 182
GsuI CTGGAG 1 cut(s) 31
HaeII RGCGCY 2 cut(s) 310, 444
HapII CCGG 1 cut(s) 23
HhaI GCGC 3 cut(s) 45, 309, 443
Hin1I GRCGYC 2 cut(s) 307, 378
Hin1II CATG 1 cut(s) 315
Hin6I GCGC 3 cut(s) 43, 307, 441
HinP1I GCGC 3 cut(s) 43, 307, 441
HincII GTYRAC 1 cut(s) 238
HindII GTYRAC 1 cut(s) 238
HinfI GANTC 2 cut(s) 274, 340
HpaII CCGG 1 cut(s) 23
HphI GGTGA 1 cut(s) 143
Hpy166II GTNNAC 2 cut(s) 151, 238
Hpy188I TCNGA 2 cut(s) 245, 296
Hpy188III TCNNGA 7 cut(s) 23, 48, 67, 227, 382, 418, 436
Hpy8I GTNNAC 2 cut(s) 151, 238
Hpy99I CGWCG 2 cut(s) 239, 437
HpyAV CCTTC 1 cut(s) 71
HpyCH4III ACNGT 1 cut(s) 197
HpyCH4IV ACGT 3 cut(s) 165, 234, 378
HpyF10VI GCNNNNNNNGC 2 cut(s) 187, 447
HpyF3I CTNAG 1 cut(s) 32
HpySE526I ACGT 3 cut(s) 165, 234, 378
Hsp92I GRCGYC 2 cut(s) 307, 378
Hsp92II CATG 1 cut(s) 315
HspAI GCGC 3 cut(s) 43, 307, 441
KasI GGCGCC 1 cut(s) 306
Kpn2I TCCGGA 1 cut(s) 22
Kzo9I GATC 3 cut(s) 202, 291, 420
LmnI GCTCC 4 cut(s) 50, 90, 119, 229
Lsp1109I GCAGC 1 cut(s) 3
MaeI CTAG 2 cut(s) 278, 360
MaeII ACGT 3 cut(s) 165, 234, 378
MalI GATC 3 cut(s) 204, 293, 422
MbiI CCGCTC 1 cut(s) 85
MboI GATC 3 cut(s) 202, 291, 420
MboII GAAGA 8 cut(s) 151, 212, 349, 365, 397, 400, 415, 422
MhlI GDGCHC 2 cut(s) 116, 234
Mly113I GGCGCC 1 cut(s) 307
MlyI GAGTC 1 cut(s) 349
MnlI CCTC 3 cut(s) 185, 262, 455
MroI TCCGGA 1 cut(s) 22
MroXI GAANNNNTTC 1 cut(s) 392
MseI TTAA 1 cut(s) 452
MspCI CTTAAG 1 cut(s) 451
MspI CCGG 1 cut(s) 23
MspR9I CCNGG 2 cut(s) 139, 326
Mva1269I GAATGC 1 cut(s) 376
MvaI CCWGG 2 cut(s) 139, 326
MwoI GCNNNNNNNGC 2 cut(s) 187, 447
NarI GGCGCC 1 cut(s) 307
NdeII GATC 3 cut(s) 202, 291, 420
NlaIII CATG 1 cut(s) 315
NlaIV GGNNCC 2 cut(s) 38, 308
PcsI WCGNNNNNNNCGW 1 cut(s) 441
PctI GAATGC 1 cut(s) 376
PdmI GAANNNNTTC 1 cut(s) 392
PfeI GAWTC 1 cut(s) 274
PkrI GCNGC 2 cut(s) 18, 183
PleI GAGTC 1 cut(s) 348
PluTI GGCGCC 1 cut(s) 310
PpsI GAGTC 1 cut(s) 348
Psp6I CCWGG 2 cut(s) 137, 324
PspGI CCWGG 2 cut(s) 137, 324
PspN4I GGNNCC 2 cut(s) 38, 308
PspPI GGNCC 2 cut(s) 4, 80
PstNI CAGNNNCTG 1 cut(s) 325
SalI GTCGAC 1 cut(s) 236
SaqAI TTAA 1 cut(s) 452
SatI GCNGC 2 cut(s) 17, 182
Sau3AI GATC 3 cut(s) 202, 291, 420
Sau96I GGNCC 2 cut(s) 4, 80
SchI GAGTC 1 cut(s) 349
ScrFI CCNGG 2 cut(s) 139, 326
SduI GDGCHC 2 cut(s) 116, 234
SetI ASST 7 cut(s) 18, 38, 168, 177, 237, 381, 452
SfoI GGCGCC 1 cut(s) 308
SinI GGWCC 2 cut(s) 4, 80
SmlI CTYRAG 2 cut(s) 176, 451
SmoI CTYRAG 2 cut(s) 176, 451
SpeI ACTAGT 1 cut(s) 359
SsiI CCGC 3 cut(s) 83, 135, 182
SspDI GGCGCC 1 cut(s) 306
SspMI CTAG 2 cut(s) 278, 360
StyD4I CCNGG 2 cut(s) 137, 324
TaaI ACNGT 1 cut(s) 197
TaiI ACGT 3 cut(s) 168, 237, 381
TaqI TCGA 3 cut(s) 126, 237, 435
TauI GCSGC 1 cut(s) 184
TfiI GAWTC 1 cut(s) 274
Tru1I TTAA 1 cut(s) 452
Tru9I TTAA 1 cut(s) 452
TseI GCWGC 1 cut(s) 16
TspDTI ATGAA 2 cut(s) 90, 366
Vha464I CTTAAG 1 cut(s) 451
VpaK11BI GGWCC 2 cut(s) 4, 80
XmiI GTMKAC 1 cut(s) 237
XmnI GAANNNNTTC 1 cut(s) 392
XspI CTAG 2 cut(s) 278, 360
ZraI GACGTC 1 cut(s) 379
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.