Rroxscaffold_6G00401140

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0016410
Physical Location & Seq
Forward (+)
23434373 .. 23439943
5571 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00401140.1

Sequence Viewer

Length: 576 bp
ATGCGCAAAACCCCAACAACTATCCGATCCTGCTCTCCAACTCACGACCTTCGAGGCCAATCCGTCGCCATTATCGGATTGGGAAAATCTGGTAGAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCTGCTTCAGTTTTAGCATATGACCACAACCCCACTTTGGGCCTCTTAGAGAAAGATCCCGTGTTTGAGGAGCATGGTGGTGATAATGGTGCATTGAGGACAATTTTTGGCCAATTTGATGGAGAGTTAATTAACAATGTGGACAGGGTGGTGGTGTCCCCTGGAGTTCCGCTACGAAAATATGGTCTTTCGTCTTTGTTGCAATCGGGAAAACAGGTGATGTCTGAGTTGGATTTTGCTGCTGAAATTCTCCCAAAATGTATCAAGATCTTAGCAGTGACAGGGACTAATGGAAAATCAACTGTTGTAACTTTTGCTGGACAGATGCTTAATCATTTGGGTATCAACACATTTGAGGGGGGTAATCTTGGAAATCCACTCTCAGAGGCTGCTTTCCAGTGCTTACAGAACCCCTTTCTAAAACCAAAGTTTAAGATTGAGAGTCTTTGA
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

191

Amino Acids

20.33

Weight (kDa)

9.07

Isoelectric Point (pI)

37.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MurD-like_N PF21799 21 - 116 9.8e-09 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)
Acc16I TGCGCA 1 cut(s) 5
AciI CCGC 2 cut(s) 101, 296
AclWI GGATC 2 cut(s) 21, 176
AcoI YGGCCR 1 cut(s) 235
AcsI RAATTY 1 cut(s) 372
AcuI CTGAAG 1 cut(s) 117
AfiI CCNNNNNNNGG 2 cut(s) 163, 164
AjnI CCWGG 1 cut(s) 286
AluBI AGCT 1 cut(s) 98
AluI AGCT 1 cut(s) 98
AlwI GGATC 2 cut(s) 21, 176
AlwNI CAGNNNCTG 1 cut(s) 515
AoxI GGCC 3 cut(s) 55, 166, 235
ApeKI GCWGC 4 cut(s) 98, 128, 365, 515
ApoI RAATTY 1 cut(s) 372
ArsI GACNNNNNNTTYG 2 cut(s) 295, 327
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 1 cut(s) 166
AsuHPI GGTGA 2 cut(s) 218, 355
BalI TGGCCA 1 cut(s) 237
BbvI GCAGC 4 cut(s) 85, 115, 352, 502
BccI CCATC 1 cut(s) 239
BciT130I CCWGG 1 cut(s) 288
BglII AGATCT 1 cut(s) 393
BisI GCNGC 5 cut(s) 99, 102, 129, 366, 516
BlsI GCNGC 5 cut(s) 100, 103, 130, 367, 517
Bme1390I CCNGG 1 cut(s) 288
BmgT120I GGNCC 1 cut(s) 166
BmrFI CCNGG 1 cut(s) 288
BmsI GCATC 1 cut(s) 441
BplI GAGNNNNNCTC 2 cut(s) 97, 129
BpmI CTGGAG 1 cut(s) 309
BsaJI CCNNGG 1 cut(s) 286
Bsc4I CCNNNNNNNGG 2 cut(s) 163, 164
Bse1I ACTGG 1 cut(s) 523
BseBI CCWGG 1 cut(s) 288
BseDI CCNNGG 1 cut(s) 286
BseLI CCNNNNNNNGG 2 cut(s) 163, 164
BseMII CTCAG 2 cut(s) 342, 522
BseNI ACTGG 1 cut(s) 523
BseRI GAGGAG 1 cut(s) 209
BseXI GCAGC 4 cut(s) 85, 115, 352, 502
BshFI GGCC 3 cut(s) 57, 168, 237
BslFI GGGAC 2 cut(s) 268, 424
BslI CCNNNNNNNGG 2 cut(s) 163, 164
BsmFI GGGAC 2 cut(s) 268, 424
BsnI GGCC 3 cut(s) 57, 168, 237
Bsp143I GATC 3 cut(s) 26, 181, 393
BspACI CCGC 2 cut(s) 101, 296
BspANI GGCC 3 cut(s) 57, 168, 237
BspCNI CTCAG 2 cut(s) 343, 521
BspPI GGATC 2 cut(s) 21, 176
BsrI ACTGG 1 cut(s) 523
BssECI CCNNGG 1 cut(s) 286
BssMI GATC 3 cut(s) 26, 181, 393
Bst2UI CCWGG 1 cut(s) 288
Bst4CI ACNGT 1 cut(s) 430
BstC8I GCNNGC 1 cut(s) 111
BstDEI CTNAG 4 cut(s) 172, 351, 397, 508
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 3 cut(s) 29, 184, 396
BstMBI GATC 3 cut(s) 26, 181, 393
BstMWI GCNNNNNNNGC 2 cut(s) 110, 125
BstNI CCWGG 1 cut(s) 288
BstSCI CCNGG 1 cut(s) 286
BstV1I GCAGC 4 cut(s) 85, 115, 352, 502
BstX2I RGATCY 2 cut(s) 181, 393
BstXI CCANNNNNNTGG 1 cut(s) 245
BstYI RGATCY 2 cut(s) 181, 393
BsuRI GGCC 3 cut(s) 57, 168, 237
BtsI GCAGTG 1 cut(s) 408
BtsIMutI CAGTG 2 cut(s) 408, 530
Cac8I GCNNGC 1 cut(s) 111
CaiI CAGNNNCTG 1 cut(s) 515
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 1 cut(s) 166
CviAII CATG 1 cut(s) 200
CviJI RGCY 6 cut(s) 57, 98, 109, 168, 237, 515
CviKI_1 RGCY 6 cut(s) 57, 98, 109, 168, 237, 515
DdeI CTNAG 4 cut(s) 172, 351, 397, 508
DpnI GATC 3 cut(s) 28, 183, 395
DpnII GATC 3 cut(s) 26, 181, 393
EaeI YGGCCR 1 cut(s) 235
Eco57I CTGAAG 1 cut(s) 117
EcoRII CCWGG 1 cut(s) 286
FaeI CATG 1 cut(s) 203
FaiI YATR 4 cut(s) 145, 147, 201, 309
FaqI GGGAC 2 cut(s) 268, 424
FatI CATG 1 cut(s) 199
FauNDI CATATG 1 cut(s) 145
Fnu4HI GCNGC 5 cut(s) 99, 102, 129, 366, 516
Fsp4HI GCNGC 5 cut(s) 99, 102, 129, 366, 516
FspI TGCGCA 1 cut(s) 5
GlaI GCGC 1 cut(s) 5
GluI GCNGC 5 cut(s) 99, 102, 129, 366, 516
GsuI CTGGAG 1 cut(s) 309
HaeIII GGCC 3 cut(s) 57, 168, 237
HhaI GCGC 1 cut(s) 6
Hin1II CATG 1 cut(s) 203
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HinfI GANTC 1 cut(s) 568
HphI GGTGA 2 cut(s) 218, 355
Hpy166II GTNNAC 1 cut(s) 268
Hpy188I TCNGA 4 cut(s) 26, 77, 352, 511
Hpy188III TCNNGA 3 cut(s) 44, 333, 391
Hpy8I GTNNAC 1 cut(s) 268
Hpy99I CGWCG 1 cut(s) 68
HpyAV CCTTC 1 cut(s) 59
HpyCH4III ACNGT 1 cut(s) 430
HpyCH4V TGCA 2 cut(s) 218, 328
HpyF10VI GCNNNNNNNGC 2 cut(s) 110, 125
HpyF3I CTNAG 4 cut(s) 172, 351, 397, 508
Hsp92II CATG 1 cut(s) 203
HspAI GCGC 1 cut(s) 4
Kzo9I GATC 3 cut(s) 26, 181, 393
LmnI GCTCC 1 cut(s) 196
Lsp1109I GCAGC 4 cut(s) 85, 115, 352, 502
LweI GCATC 1 cut(s) 441
MaeIII GTNAC 2 cut(s) 403, 433
MalI GATC 3 cut(s) 28, 183, 395
MboI GATC 3 cut(s) 26, 181, 393
MflI RGATCY 2 cut(s) 181, 393
MlsI TGGCCA 1 cut(s) 237
MluCI AATT 4 cut(s) 228, 239, 255, 372
MluNI TGGCCA 1 cut(s) 237
MmeI TCCRAC 2 cut(s) 62, 336
MnlI CCTC 8 cut(s) 47, 99, 116, 179, 187, 216, 475, 505
Mox20I TGGCCA 1 cut(s) 237
MscI TGGCCA 1 cut(s) 237
MseI TTAA 4 cut(s) 254, 258, 456, 558
MslI CAYNNNNRTG 1 cut(s) 204
Msp20I TGGCCA 1 cut(s) 237
MspR9I CCNGG 1 cut(s) 288
MvaI CCWGG 1 cut(s) 288
MwoI GCNNNNNNNGC 2 cut(s) 110, 125
NdeI CATATG 1 cut(s) 145
NdeII GATC 3 cut(s) 26, 181, 393
NlaIII CATG 1 cut(s) 203
NmuCI GTSAC 1 cut(s) 403
NsbI TGCGCA 1 cut(s) 5
PacI TTAATTAA 1 cut(s) 258
PkrI GCNGC 5 cut(s) 100, 103, 130, 367, 517
Psp6I CCWGG 1 cut(s) 286
PspGI CCWGG 1 cut(s) 286
PspPI GGNCC 1 cut(s) 166
PstNI CAGNNNCTG 1 cut(s) 515
PsuI RGATCY 2 cut(s) 181, 393
RseI CAYNNNNRTG 1 cut(s) 204
SaqAI TTAA 4 cut(s) 254, 258, 456, 558
SatI GCNGC 5 cut(s) 99, 102, 129, 366, 516
Sau3AI GATC 3 cut(s) 26, 181, 393
Sau96I GGNCC 1 cut(s) 166
ScrFI CCNGG 1 cut(s) 288
SetI ASST 4 cut(s) 51, 100, 127, 345
SfaNI GCATC 1 cut(s) 441
SmiMI CAYNNNNRTG 1 cut(s) 204
Sse9I AATT 4 cut(s) 228, 239, 255, 372
SsiI CCGC 2 cut(s) 101, 296
StyD4I CCNGG 1 cut(s) 286
TaaI ACNGT 1 cut(s) 430
TaqI TCGA 1 cut(s) 52
TasI AATT 4 cut(s) 228, 239, 255, 372
TauI GCSGC 1 cut(s) 104
Tru1I TTAA 4 cut(s) 254, 258, 456, 558
Tru9I TTAA 4 cut(s) 254, 258, 456, 558
TscAI CASTG 2 cut(s) 408, 530
TseFI GTSAC 1 cut(s) 403
TseI GCWGC 4 cut(s) 98, 128, 365, 515
Tsp45I GTSAC 1 cut(s) 403
TspGWI ACGGA 1 cut(s) 52
TspRI CASTG 2 cut(s) 408, 530
XapI RAATTY 1 cut(s) 372
XcmI CCANNNNNNNNNTGG 1 cut(s) 76
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.