RchiOBHm_Chr3g0480721

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0016410
Physical Location & Seq
Reverse (-)
26537933 .. 26539143
1211 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 534 bp
ATGATCGGATTGGGAAAATCTGGTAGAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCCGCTTCAGTTTTAGCATTTGACCACAACCCCACTTTGGGCCTCTTAGAGAAAGATCCCGTGTTTGAGGTGCATGGTGGTGATAATGGTGCATCGAGAACAATTTTGGGCCAATTTGATGGAGAGTTACTTAACAATGTGGACAGGGTGGTGGTGTCCCCTGGGGTTCCGCTACGAAAATATGGTCTTTCGTCTTTGTTGCAATCGGGAAAACAGGTGATGTCTGAGTTGGATTTTGCAGCTGAAATTCTCCCAAAATGTATCAAGATCTTAGCAGTGACAGGGACTAATGGAAAATCAACTGTTGTCACTTTTGCTGGACAGTATGAAGTTTCTTCTATTGTTACTGATGGAAATCTGTTTAACTCATCTGAAGCCAGATGCTTAATCATTTGGGTATCAACACATTTTTGGGGGGTAATCTTGGAAATCCACTCTCAGAGGCTGCTTTCCATTGCTTACAGAACCCCCTTCTAA
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
2-Hacid_dh_C Mur_ligase_C Mur_ligase_M

Protein Analysis

177

Amino Acids

18.95

Weight (kDa)

7.82

Isoelectric Point (pI)

28.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MurD-like_N PF21799 2 - 93 2.4e-07 Mur ligase MurD-like, N-terminal 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: OG0016410)

Species Orthologous Gene IDs
malus_domestica MD12G1063100.v1.1
prunus_persica Prupe.7G070400_v2.0.a1
pyrus_communis pycom12g05560
rosa_chinensis RchiOBHm_Chr3g0480711 RchiOBHm_Chr3g0480721
rosa_multiflora Rmu_sc0001135.1_g000007 Rmu_sc0003902.1_g000026
rosa_roxburghii Rroxscaffold_6G00401140
rosa_rugosa Rorug03G0185000 Rorug03G0185100
rosa_samantha Rh3AG237200 Rh3BG270300 Rh3CG266500 Rh3DG262700
rosa_wichuraiana Rw3G021240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 56
AciI CCGC 3 cut(s) 32, 60, 227
AclWI GGATC 1 cut(s) 107
AcsI RAATTY 1 cut(s) 303
AcuI CTGAAG 2 cut(s) 48, 450
AfiI CCNNNNNNNGG 2 cut(s) 94, 95
AjnI CCWGG 1 cut(s) 217
AluBI AGCT 2 cut(s) 29, 299
AluI AGCT 2 cut(s) 29, 299
AlwI GGATC 1 cut(s) 107
AlwNI CAGNNNCTG 1 cut(s) 502
AoxI GGCC 2 cut(s) 97, 166
ApeKI GCWGC 3 cut(s) 29, 296, 502
ApoI RAATTY 1 cut(s) 303
ArsI GACNNNNNNTTYG 2 cut(s) 226, 258
AspS9I GGNCC 2 cut(s) 97, 166
AsuHPI GGTGA 2 cut(s) 149, 286
BanI GGYRCC 1 cut(s) 56
BbvI GCAGC 3 cut(s) 16, 308, 489
BccI CCATC 2 cut(s) 170, 401
BciT130I CCWGG 1 cut(s) 219
BglII AGATCT 1 cut(s) 324
BisI GCNGC 5 cut(s) 30, 33, 60, 297, 503
BlsI GCNGC 5 cut(s) 31, 34, 61, 298, 504
Bme1390I CCNGG 1 cut(s) 219
BmgT120I GGNCC 2 cut(s) 97, 166
BmiI GGNNCC 2 cut(s) 58, 225
BmrFI CCNGG 1 cut(s) 219
BmsI GCATC 2 cut(s) 158, 428
BplI GAGNNNNNCTC 2 cut(s) 28, 60
BsaBI GATNNNNATC 1 cut(s) 411
BsaJI CCNNGG 2 cut(s) 217, 218
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 95
Bse3DI GCAATG 1 cut(s) 510
Bse8I GATNNNNATC 1 cut(s) 411
BseBI CCWGG 1 cut(s) 219
BseDI CCNNGG 2 cut(s) 217, 218
BseJI GATNNNNATC 1 cut(s) 411
BseLI CCNNNNNNNGG 2 cut(s) 94, 95
BseMI GCAATG 1 cut(s) 510
BseMII CTCAG 2 cut(s) 273, 509
BseXI GCAGC 3 cut(s) 16, 308, 489
BshFI GGCC 2 cut(s) 99, 168
BshNI GGYRCC 1 cut(s) 56
BslFI GGGAC 2 cut(s) 199, 355
BslI CCNNNNNNNGG 2 cut(s) 94, 95
BsmFI GGGAC 2 cut(s) 199, 355
BsnI GGCC 2 cut(s) 99, 168
Bsp143I GATC 3 cut(s) 3, 112, 324
BspACI CCGC 3 cut(s) 32, 60, 227
BspANI GGCC 2 cut(s) 99, 168
BspCNI CTCAG 2 cut(s) 274, 508
BspLI GGNNCC 2 cut(s) 58, 225
BspPI GGATC 1 cut(s) 107
BspT107I GGYRCC 1 cut(s) 56
BsrDI GCAATG 1 cut(s) 510
BssECI CCNNGG 2 cut(s) 217, 218
BssMI GATC 3 cut(s) 3, 112, 324
Bst2UI CCWGG 1 cut(s) 219
Bst4CI ACNGT 2 cut(s) 361, 381
BstC8I GCNNGC 1 cut(s) 42
BstDEI CTNAG 4 cut(s) 103, 282, 328, 495
BstKTI GATC 3 cut(s) 6, 115, 327
BstMBI GATC 3 cut(s) 3, 112, 324
BstMWI GCNNNNNNNGC 2 cut(s) 41, 56
BstNI CCWGG 1 cut(s) 219
BstSCI CCNGG 1 cut(s) 217
BstV1I GCAGC 3 cut(s) 16, 308, 489
BstX2I RGATCY 2 cut(s) 112, 324
BstXI CCANNNNNNTGG 1 cut(s) 176
BstYI RGATCY 2 cut(s) 112, 324
BsuRI GGCC 2 cut(s) 99, 168
BtsI GCAGTG 1 cut(s) 339
BtsIMutI CAGTG 1 cut(s) 339
Cac8I GCNNGC 1 cut(s) 42
CaiI CAGNNNCTG 1 cut(s) 502
Cfr13I GGNCC 2 cut(s) 97, 166
CviAII CATG 1 cut(s) 131
CviJI RGCY 7 cut(s) 29, 40, 99, 168, 299, 434, 502
CviKI_1 RGCY 7 cut(s) 29, 40, 99, 168, 299, 434, 502
DdeI CTNAG 4 cut(s) 103, 282, 328, 495
DpnI GATC 3 cut(s) 5, 114, 326
DpnII GATC 3 cut(s) 3, 112, 324
Eco57I CTGAAG 2 cut(s) 48, 450
EcoRII CCWGG 1 cut(s) 217
FaeI CATG 1 cut(s) 134
FaiI YATR 3 cut(s) 132, 240, 384
FaqI GGGAC 2 cut(s) 199, 355
FatI CATG 1 cut(s) 130
Fnu4HI GCNGC 5 cut(s) 30, 33, 60, 297, 503
Fsp4HI GCNGC 5 cut(s) 30, 33, 60, 297, 503
GluI GCNGC 5 cut(s) 30, 33, 60, 297, 503
HaeIII GGCC 2 cut(s) 99, 168
Hin1II CATG 1 cut(s) 134
HphI GGTGA 2 cut(s) 149, 286
Hpy166II GTNNAC 1 cut(s) 199
Hpy188I TCNGA 4 cut(s) 8, 283, 430, 498
Hpy188III TCNNGA 3 cut(s) 153, 264, 322
Hpy8I GTNNAC 1 cut(s) 199
HpyCH4III ACNGT 2 cut(s) 361, 381
HpyCH4V TGCA 4 cut(s) 130, 149, 259, 296
HpyF10VI GCNNNNNNNGC 2 cut(s) 41, 56
HpyF3I CTNAG 4 cut(s) 103, 282, 328, 495
Hsp92II CATG 1 cut(s) 134
Kzo9I GATC 3 cut(s) 3, 112, 324
LpnPI CCDG 9 cut(s) 6, 64, 187, 204, 231, 257, 324, 360, 448
Lsp1109I GCAGC 3 cut(s) 16, 308, 489
LweI GCATC 2 cut(s) 158, 428
MaeIII GTNAC 4 cut(s) 183, 334, 364, 400
MalI GATC 3 cut(s) 5, 114, 326
MboI GATC 3 cut(s) 3, 112, 324
MboII GAAGA 1 cut(s) 384
MflI RGATCY 2 cut(s) 112, 324
MluCI AATT 3 cut(s) 159, 170, 303
MmeI TCCRAC 1 cut(s) 267
MnlI CCTC 5 cut(s) 30, 47, 110, 118, 492
MseI TTAA 3 cut(s) 189, 420, 443
MslI CAYNNNNRTG 1 cut(s) 135
MspA1I CMGCKG 1 cut(s) 299
MspR9I CCNGG 1 cut(s) 219
MvaI CCWGG 1 cut(s) 219
MwoI GCNNNNNNNGC 2 cut(s) 41, 56
NdeII GATC 3 cut(s) 3, 112, 324
NlaIII CATG 1 cut(s) 134
NlaIV GGNNCC 2 cut(s) 58, 225
NmuCI GTSAC 2 cut(s) 334, 364
PasI CCCWGGG 1 cut(s) 218
PkrI GCNGC 5 cut(s) 31, 34, 61, 298, 504
Psp6I CCWGG 1 cut(s) 217
PspGI CCWGG 1 cut(s) 217
PspN4I GGNNCC 2 cut(s) 58, 225
PspPI GGNCC 2 cut(s) 97, 166
PstNI CAGNNNCTG 1 cut(s) 502
PsuI RGATCY 2 cut(s) 112, 324
PvuII CAGCTG 1 cut(s) 299
RseI CAYNNNNRTG 1 cut(s) 135
SaqAI TTAA 3 cut(s) 189, 420, 443
SatI GCNGC 5 cut(s) 30, 33, 60, 297, 503
Sau3AI GATC 3 cut(s) 3, 112, 324
Sau96I GGNCC 2 cut(s) 97, 166
ScrFI CCNGG 1 cut(s) 219
SetI ASST 5 cut(s) 31, 58, 129, 276, 301
SfaNI GCATC 2 cut(s) 158, 428
SmiMI CAYNNNNRTG 1 cut(s) 135
Sse9I AATT 3 cut(s) 159, 170, 303
SsiI CCGC 3 cut(s) 32, 60, 227
StyD4I CCNGG 1 cut(s) 217
TaaI ACNGT 2 cut(s) 361, 381
TaqI TCGA 1 cut(s) 152
TasI AATT 3 cut(s) 159, 170, 303
TauI GCSGC 2 cut(s) 35, 62
Tru1I TTAA 3 cut(s) 189, 420, 443
Tru9I TTAA 3 cut(s) 189, 420, 443
TscAI CASTG 1 cut(s) 339
TseFI GTSAC 2 cut(s) 334, 364
TseI GCWGC 3 cut(s) 29, 296, 502
Tsp45I GTSAC 2 cut(s) 334, 364
TspDTI ATGAA 1 cut(s) 399
TspRI CASTG 1 cut(s) 339
XapI RAATTY 1 cut(s) 303
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.