RchiOBHm_Chr5g0024461

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000364
Physical Location & Seq
Reverse (-)
18591538 .. 18591834
297 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ30421

Sequence Viewer

Length: 297 bp
ATGAGCGCACGTCAAATGCTGAGTAGCCTTGGACGTATTCATGTGACACACAATACAAGATTTCCTTTTACAGAGTGGGAAATAGTGAACTTGGCAAAGGAGGCTGGGTTATATCTGGTTGACGAAGAAACATTCTACCCATGGCAATATCCAGGTTATGTAAATAAAAGAGGAGCTGGGAACTGCGATGAAAGCTTTAGAGTTGGCATGTCTAGCACCTTCAAAGGTACTAGATGTACTCGAGAATTGGCTGTCATGAGCGCTAAGCTGCATTGTTATCGTCTATTTAAAGTTTGA
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
DUF2431

Protein Analysis

98

Amino Acids

11.33

Weight (kDa)

9.15

Isoelectric Point (pI)

45.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 2 - 57 5.2e-11 rRNA (uridine-N3-)-methyltransferase BTM5-like
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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 2 cut(s) 229, 238
AfeI AGCGCT 1 cut(s) 262
AgsI TTSAA 1 cut(s) 223
AjiI CACGTC 1 cut(s) 11
AjnI CCWGG 1 cut(s) 151
AluBI AGCT 3 cut(s) 176, 195, 268
AluI AGCT 3 cut(s) 176, 195, 268
Ama87I CYCGRG 1 cut(s) 240
Aor51HI AGCGCT 1 cut(s) 262
ApeKI GCWGC 1 cut(s) 268
AspLEI GCGC 2 cut(s) 8, 263
AvaI CYCGRG 1 cut(s) 240
BbvI GCAGC 1 cut(s) 255
BcgI CGANNNNNNTGC 2 cut(s) 260, 294
BciT130I CCWGG 1 cut(s) 153
BfaI CTAG 2 cut(s) 213, 231
BfoI RGCGCY 1 cut(s) 264
BisI GCNGC 1 cut(s) 269
BlpI GCTNAGC 1 cut(s) 264
BlsI GCNGC 1 cut(s) 270
Bme1390I CCNGG 1 cut(s) 153
BmeT110I CYCGRG 1 cut(s) 240
BmgBI CACGTC 1 cut(s) 11
BmrFI CCNGG 1 cut(s) 153
Bpu1102I GCTNAGC 1 cut(s) 264
BsaJI CCNNGG 2 cut(s) 28, 140
BsaXI ACNNNNNCTCC 2 cut(s) 92, 122
BseBI CCWGG 1 cut(s) 153
BseDI CCNNGG 2 cut(s) 28, 140
BseMII CTCAG 1 cut(s) 11
BseRI GAGGAG 1 cut(s) 186
BseXI GCAGC 1 cut(s) 255
BseYI CCCAGC 2 cut(s) 104, 176
BsiHKCI CYCGRG 1 cut(s) 240
BsoBI CYCGRG 1 cut(s) 240
Bsp1720I GCTNAGC 1 cut(s) 264
Bsp19I CCATGG 1 cut(s) 140
BspCNI CTCAG 1 cut(s) 12
BspHI TCATGA 1 cut(s) 255
BssECI CCNNGG 2 cut(s) 28, 140
BssT1I CCWWGG 2 cut(s) 28, 140
Bst2UI CCWGG 1 cut(s) 153
BstDEI CTNAG 2 cut(s) 20, 264
BstDSI CCRYGG 1 cut(s) 140
BstH2I RGCGCY 1 cut(s) 264
BstHHI GCGC 2 cut(s) 8, 263
BstMWI GCNNNNNNNGC 3 cut(s) 101, 192, 213
BstNI CCWGG 1 cut(s) 153
BstNSI RCATGY 1 cut(s) 211
BstSCI CCNGG 1 cut(s) 151
BstV1I GCAGC 1 cut(s) 255
BtgI CCRYGG 1 cut(s) 140
BtgZI GCGATG 1 cut(s) 201
BtrI CACGTC 1 cut(s) 11
CciI TCATGA 1 cut(s) 255
CfoI GCGC 2 cut(s) 8, 263
Csp6I GTAC 2 cut(s) 228, 237
CviAII CATG 4 cut(s) 41, 141, 208, 256
CviJI RGCY 6 cut(s) 27, 104, 176, 195, 251, 268
CviKI_1 RGCY 6 cut(s) 27, 104, 176, 195, 251, 268
CviQI GTAC 2 cut(s) 228, 237
DdeI CTNAG 2 cut(s) 20, 264
DraI TTTAAA 1 cut(s) 289
Eco130I CCWWGG 2 cut(s) 28, 140
Eco47III AGCGCT 1 cut(s) 262
Eco88I CYCGRG 1 cut(s) 240
EcoRII CCWGG 1 cut(s) 151
EcoT14I CCWWGG 2 cut(s) 28, 140
ErhI CCWWGG 2 cut(s) 28, 140
FaeI CATG 4 cut(s) 44, 144, 211, 259
FaiI YATR 6 cut(s) 42, 112, 142, 159, 209, 257
FalI AAGNNNNNCTT 2 cut(s) 49, 81
FatI CATG 4 cut(s) 40, 140, 207, 255
Fnu4HI GCNGC 1 cut(s) 269
Fsp4HI GCNGC 1 cut(s) 269
FspBI CTAG 2 cut(s) 213, 231
GlaI GCGC 2 cut(s) 7, 262
GluI GCNGC 1 cut(s) 269
GsaI CCCAGC 2 cut(s) 108, 180
HaeII RGCGCY 1 cut(s) 264
HhaI GCGC 2 cut(s) 8, 263
Hin1II CATG 4 cut(s) 44, 144, 211, 259
Hin6I GCGC 2 cut(s) 6, 261
HinP1I GCGC 2 cut(s) 6, 261
HincII GTYRAC 1 cut(s) 121
HindII GTYRAC 1 cut(s) 121
HindIII AAGCTT 1 cut(s) 193
Hpy166II GTNNAC 2 cut(s) 88, 121
Hpy188III TCNNGA 2 cut(s) 242, 256
Hpy8I GTNNAC 2 cut(s) 88, 121
HpyAV CCTTC 1 cut(s) 229
HpyCH4IV ACGT 2 cut(s) 10, 34
HpyCH4V TGCA 1 cut(s) 271
HpyF10VI GCNNNNNNNGC 3 cut(s) 101, 192, 213
HpyF3I CTNAG 2 cut(s) 20, 264
HpySE526I ACGT 2 cut(s) 10, 34
Hsp92II CATG 4 cut(s) 44, 144, 211, 259
HspAI GCGC 2 cut(s) 6, 261
LmnI GCTCC 1 cut(s) 173
LpnPI CCDG 5 cut(s) 90, 101, 138, 162, 165
Lsp1109I GCAGC 1 cut(s) 255
MaeI CTAG 2 cut(s) 213, 231
MaeII ACGT 2 cut(s) 10, 34
MaeIII GTNAC 1 cut(s) 43
MboII GAAGA 1 cut(s) 137
MluCI AATT 1 cut(s) 245
MnlI CCTC 2 cut(s) 94, 164
MseI TTAA 1 cut(s) 288
MspR9I CCNGG 1 cut(s) 153
MvaI CCWGG 1 cut(s) 153
MwoI GCNNNNNNNGC 3 cut(s) 101, 192, 213
NcoI CCATGG 1 cut(s) 140
NlaIII CATG 4 cut(s) 44, 144, 211, 259
NmuCI GTSAC 1 cut(s) 43
NspI RCATGY 1 cut(s) 211
PaeR7I CTCGAG 1 cut(s) 240
PagI TCATGA 1 cut(s) 255
PkrI GCNGC 1 cut(s) 270
Psp6I CCWGG 1 cut(s) 151
PspFI CCCAGC 2 cut(s) 104, 176
PspGI CCWGG 1 cut(s) 151
RsaI GTAC 2 cut(s) 229, 238
RsaNI GTAC 2 cut(s) 228, 237
SaqAI TTAA 1 cut(s) 288
SatI GCNGC 1 cut(s) 269
ScrFI CCNGG 1 cut(s) 153
SetI ASST 8 cut(s) 13, 37, 157, 178, 197, 221, 229, 270
Sfr274I CTCGAG 1 cut(s) 240
SlaI CTCGAG 1 cut(s) 240
SmlI CTYRAG 1 cut(s) 240
SmoI CTYRAG 1 cut(s) 240
Sse9I AATT 1 cut(s) 245
SspMI CTAG 2 cut(s) 213, 231
StyD4I CCNGG 1 cut(s) 151
StyI CCWWGG 2 cut(s) 28, 140
TaiI ACGT 2 cut(s) 13, 37
TaqI TCGA 1 cut(s) 241
TasI AATT 1 cut(s) 245
TatI WGTACW 1 cut(s) 236
Tru1I TTAA 1 cut(s) 288
Tru9I TTAA 1 cut(s) 288
TseFI GTSAC 1 cut(s) 43
TseI GCWGC 1 cut(s) 268
Tsp45I GTSAC 1 cut(s) 43
TspDTI ATGAA 2 cut(s) 29, 204
XceI RCATGY 1 cut(s) 211
XhoI CTCGAG 1 cut(s) 240
XspI CTAG 2 cut(s) 213, 231
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.