RchiOBHm_Chr5g0075331

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000276
Physical Location & Seq
Reverse (-)
81162431 .. 81162945
515 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ35006

Sequence Viewer

Length: 315 bp
ATGCAGAACCAAGGCTTTAAAGATTGCAGCAACTGCACCAGGTGTGAACAAAGTGTCGTTGAAGGTGATCATATGGAGGTGATTGGGAATGGAGTTGACTCGGTATGCTTGACTAGGGCTTTAAGGAAGAAGCTTGGCTTCGCCAATATAATCAAAGTCGAACAAGTGGGAGAATCCACAGCCACTACCGAGGAAGAAAACCCGACTCCGATTCAATATTGTACTACTACATCAAGCTATAGTCATTTTCAACATCCTCCGATAGTTTGTCCAATGTACTATCATGAACCAACTGATAACTGCTCTATTATGTAA
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
HMA

Protein Analysis

104

Amino Acids

11.62

Weight (kDa)

5.01

Isoelectric Point (pI)

40.22

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: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AdeI CACNNNGTG 1 cut(s) 42
AfaI GTAC 2 cut(s) 223, 278
AgsI TTSAA 3 cut(s) 62, 215, 251
AjnI CCWGG 1 cut(s) 38
AluBI AGCT 2 cut(s) 133, 237
AluI AGCT 2 cut(s) 133, 237
AlwNI CAGNNNCTG 1 cut(s) 33
ApeKI GCWGC 1 cut(s) 27
AsuHPI GGTGA 2 cut(s) 77, 91
BbvI GCAGC 1 cut(s) 39
BciT130I CCWGG 1 cut(s) 40
BclI TGATCA 1 cut(s) 67
BfaI CTAG 1 cut(s) 114
BfmI CTRYAG 1 cut(s) 238
BisI GCNGC 1 cut(s) 28
BlsI GCNGC 1 cut(s) 29
Bme1390I CCNGG 1 cut(s) 40
BmrFI CCNGG 1 cut(s) 40
BsaJI CCNNGG 2 cut(s) 10, 189
BseBI CCWGG 1 cut(s) 40
BseDI CCNNGG 2 cut(s) 10, 189
BseGI GGATG 1 cut(s) 253
BseXI GCAGC 1 cut(s) 39
BsgI GTGCAG 1 cut(s) 19
Bsp143I GATC 1 cut(s) 67
BspHI TCATGA 1 cut(s) 283
BssECI CCNNGG 2 cut(s) 10, 189
BssMI GATC 1 cut(s) 67
BssT1I CCWWGG 1 cut(s) 10
Bst2UI CCWGG 1 cut(s) 40
BstAPI GCANNNNNTGC 1 cut(s) 33
BstF5I GGATG 1 cut(s) 253
BstKTI GATC 1 cut(s) 70
BstMBI GATC 1 cut(s) 67
BstMWI GCNNNNNNNGC 1 cut(s) 33
BstNI CCWGG 1 cut(s) 40
BstSCI CCNGG 1 cut(s) 38
BstSFI CTRYAG 1 cut(s) 238
BstV1I GCAGC 1 cut(s) 39
BtsCI GGATG 1 cut(s) 253
CaiI CAGNNNCTG 1 cut(s) 33
CciI TCATGA 1 cut(s) 283
CsiI ACCWGGT 1 cut(s) 38
Csp6I GTAC 2 cut(s) 222, 277
CviAII CATG 1 cut(s) 284
CviJI RGCY 6 cut(s) 15, 119, 133, 138, 182, 237
CviKI_1 RGCY 6 cut(s) 15, 119, 133, 138, 182, 237
CviQI GTAC 2 cut(s) 222, 277
DpnI GATC 1 cut(s) 69
DpnII GATC 1 cut(s) 67
DraI TTTAAA 1 cut(s) 19
DraIII CACNNNGTG 1 cut(s) 42
Eco130I CCWWGG 1 cut(s) 10
EcoRII CCWGG 1 cut(s) 38
EcoT14I CCWWGG 1 cut(s) 10
ErhI CCWWGG 1 cut(s) 10
FaeI CATG 1 cut(s) 287
FaiI YATR 7 cut(s) 72, 74, 106, 149, 240, 285, 311
FalI AAGNNNNNCTT 2 cut(s) 122, 154
FatI CATG 1 cut(s) 283
FauNDI CATATG 1 cut(s) 72
FbaI TGATCA 1 cut(s) 67
Fnu4HI GCNGC 1 cut(s) 28
FokI GGATG 1 cut(s) 240
Fsp4HI GCNGC 1 cut(s) 28
FspBI CTAG 1 cut(s) 114
GluI GCNGC 1 cut(s) 28
Hin1II CATG 1 cut(s) 287
HincII GTYRAC 1 cut(s) 97
HindII GTYRAC 1 cut(s) 97
HindIII AAGCTT 1 cut(s) 131
HinfI GANTC 4 cut(s) 98, 173, 205, 211
HphI GGTGA 2 cut(s) 77, 91
Hpy166II GTNNAC 2 cut(s) 47, 97
Hpy188I TCNGA 2 cut(s) 210, 261
Hpy188III TCNNGA 1 cut(s) 284
Hpy8I GTNNAC 2 cut(s) 47, 97
HpyAV CCTTC 1 cut(s) 56
HpyCH4V TGCA 3 cut(s) 4, 27, 36
HpyF10VI GCNNNNNNNGC 1 cut(s) 33
Hsp92II CATG 1 cut(s) 287
Ksp22I TGATCA 1 cut(s) 67
Kzo9I GATC 1 cut(s) 67
LpnPI CCDG 2 cut(s) 25, 52
Lsp1109I GCAGC 1 cut(s) 39
MabI ACCWGGT 1 cut(s) 38
MaeI CTAG 1 cut(s) 114
MalI GATC 1 cut(s) 69
MboI GATC 1 cut(s) 67
MboII GAAGA 2 cut(s) 139, 206
MlyI GAGTC 2 cut(s) 92, 199
MnlI CCTC 3 cut(s) 70, 184, 267
MseI TTAA 2 cut(s) 18, 122
MspR9I CCNGG 1 cut(s) 40
MvaI CCWGG 1 cut(s) 40
MwoI GCNNNNNNNGC 1 cut(s) 33
NdeI CATATG 1 cut(s) 72
NdeII GATC 1 cut(s) 67
NlaIII CATG 1 cut(s) 287
PagI TCATGA 1 cut(s) 283
PfeI GAWTC 2 cut(s) 173, 211
PkrI GCNGC 1 cut(s) 29
PleI GAGTC 2 cut(s) 92, 199
PpsI GAGTC 2 cut(s) 92, 199
Psp6I CCWGG 1 cut(s) 38
PspGI CCWGG 1 cut(s) 38
PstNI CAGNNNCTG 1 cut(s) 33
RsaI GTAC 2 cut(s) 223, 278
RsaNI GTAC 2 cut(s) 222, 277
SaqAI TTAA 2 cut(s) 18, 122
SatI GCNGC 1 cut(s) 28
Sau3AI GATC 1 cut(s) 67
SchI GAGTC 2 cut(s) 92, 199
ScrFI CCNGG 1 cut(s) 40
SetI ASST 5 cut(s) 44, 67, 81, 135, 239
SexAI ACCWGGT 1 cut(s) 38
SfcI CTRYAG 1 cut(s) 238
SspI AATATT 1 cut(s) 218
SspMI CTAG 1 cut(s) 114
StyD4I CCNGG 1 cut(s) 38
StyI CCWWGG 1 cut(s) 10
TaqI TCGA 1 cut(s) 159
TatI WGTACW 2 cut(s) 221, 276
TfiI GAWTC 2 cut(s) 173, 211
Tru1I TTAA 2 cut(s) 18, 122
Tru9I TTAA 2 cut(s) 18, 122
TseI GCWGC 1 cut(s) 27
TspDTI ATGAA 1 cut(s) 300
XspI CTAG 1 cut(s) 114
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.