Rmu_sc0001135.1_g000007

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001135.1
OG0016410
Physical Location & Seq
Forward (+)
21503 .. 23583
2081 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 669 bp
atgcttgtcattgttaattcacatgagaagattgatatggaagcaaaaattgcaagctttgaagtgcctgccttgggaatcaattctcaactacaattgggcgcaatgaacatgattggaacacagaactgtcacaatgctgcagttgctgttttatctgttgttggactggatgtaggacttgatgttgaagccattggtccatgtatagaaaagttaaggccaccacctcatcgtatgcaaattgtatgcaaggatatgcacggggtaacttgggttgatgacagcaaggcaacaaatgtagaagctacgtacacaggactaatgggtctaaagaggcaaaagtctgtgattctacttggtggccttgcgaaggttgtggacggacatttgtctaatggttttgaacaattgatagaacagtaccacagacgtgtaatcacttttggatcttcaggactgctgattcaaaggacattatccgatagtggtcttagtataccctccatcagagcagaaaatctgaaggatgctgtcagcttggctaggaagatggcagaacatggggacgttattttaccaagtccaggttgtgcaagctttgatgaatttagaaattttgagcacagggggatggttttccaggagctggcttttgcatcatcttaa
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

222

Amino Acids

24.06

Weight (kDa)

6.05

Isoelectric Point (pI)

34.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Mur_ligase_C PF02875 78 - 195 3.2e-08 Mur ligase, glutamate ligase 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)
AasI GACNNNNNNGTC 1 cut(s) 327
AccB7I CCANNNNNTGG 1 cut(s) 649
AccI GTMKAC 1 cut(s) 499
AclWI GGATC 1 cut(s) 457
AcsI RAATTY 2 cut(s) 608, 616
AcuI CTGAAG 2 cut(s) 438, 545
AfaI GTAC 2 cut(s) 314, 425
AfiI CCNNNNNNNGG 4 cut(s) 74, 373, 587, 649
AflIII ACRYGT 1 cut(s) 433
AgsI TTSAA 4 cut(s) 62, 191, 407, 470
AjiI CACGTC 1 cut(s) 434
AjnI CCWGG 2 cut(s) 586, 642
AleI CACNNNNGTG 1 cut(s) 432
AluBI AGCT 5 cut(s) 57, 308, 540, 600, 649
AluI AGCT 5 cut(s) 57, 308, 540, 600, 649
Alw21I GWGCWC 1 cut(s) 627
AlwI GGATC 1 cut(s) 457
AlwNI CAGNNNCTG 2 cut(s) 149, 649
AoxI GGCC 2 cut(s) 221, 364
ApeKI GCWGC 1 cut(s) 140
ApoI RAATTY 2 cut(s) 608, 616
Asp700I GAANNNNTTC 1 cut(s) 82
AspLEI GCGC 1 cut(s) 104
AspS9I GGNCC 1 cut(s) 200
AvaII GGWCC 1 cut(s) 200
Bbv12I GWGCWC 1 cut(s) 627
BbvI GCAGC 1 cut(s) 127
BccI CCATC 3 cut(s) 515, 547, 628
BciT130I CCWGG 2 cut(s) 588, 644
BfaI CTAG 1 cut(s) 546
BfmI CTRYAG 1 cut(s) 141
BisI GCNGC 1 cut(s) 141
BlsI GCNGC 1 cut(s) 142
Bme1390I CCNGG 2 cut(s) 588, 644
Bme18I GGWCC 1 cut(s) 200
BmgBI CACGTC 1 cut(s) 434
BmgT120I GGNCC 1 cut(s) 200
BmrFI CCNGG 2 cut(s) 588, 644
BmsI GCATC 1 cut(s) 520
BoxI GACNNNNGTC 1 cut(s) 391
BsaAI YACGTR 1 cut(s) 312
BsaJI CCNNGG 1 cut(s) 72
Bsc4I CCNNNNNNNGG 4 cut(s) 74, 373, 587, 649
Bse1I ACTGG 1 cut(s) 174
Bse3DI GCAATG 1 cut(s) 111
BseBI CCWGG 2 cut(s) 588, 644
BseDI CCNNGG 1 cut(s) 72
BseGI GGATG 3 cut(s) 178, 535, 639
BseLI CCNNNNNNNGG 4 cut(s) 74, 373, 587, 649
BseMI GCAATG 1 cut(s) 111
BseNI ACTGG 1 cut(s) 174
BseXI GCAGC 1 cut(s) 127
BshFI GGCC 2 cut(s) 223, 366
BsiHKAI GWGCWC 1 cut(s) 627
BslFI GGGAC 1 cut(s) 581
BslI CCNNNNNNNGG 4 cut(s) 74, 373, 587, 649
BsmFI GGGAC 1 cut(s) 581
BsnI GGCC 2 cut(s) 223, 366
Bsp1286I GDGCHC 1 cut(s) 627
Bsp143I GATC 1 cut(s) 449
BspANI GGCC 2 cut(s) 223, 366
BspMAI CTGCAG 1 cut(s) 145
BspPI GGATC 1 cut(s) 457
BsrDI GCAATG 1 cut(s) 111
BsrI ACTGG 1 cut(s) 174
BssECI CCNNGG 1 cut(s) 72
BssMI GATC 1 cut(s) 449
BssNAI GTATAC 1 cut(s) 500
BssT1I CCWWGG 1 cut(s) 72
Bst1107I GTATAC 1 cut(s) 500
Bst2UI CCWGG 2 cut(s) 588, 644
Bst4CI ACNGT 2 cut(s) 131, 423
BstAPI GCANNNNNTGC 1 cut(s) 50
BstBAI YACGTR 1 cut(s) 312
BstC8I GCNNGC 4 cut(s) 55, 69, 598, 651
BstDEI CTNAG 1 cut(s) 494
BstENI CCTNNNNNAGG 1 cut(s) 371
BstF5I GGATG 3 cut(s) 178, 535, 639
BstHHI GCGC 1 cut(s) 104
BstKTI GATC 1 cut(s) 452
BstMBI GATC 1 cut(s) 449
BstMWI GCNNNNNNNGC 2 cut(s) 50, 146
BstNI CCWGG 2 cut(s) 588, 644
BstPAI GACNNNNGTC 1 cut(s) 391
BstSCI CCNGG 2 cut(s) 586, 642
BstSFI CTRYAG 1 cut(s) 141
BstSNI TACGTA 1 cut(s) 312
BstV1I GCAGC 1 cut(s) 127
BstX2I RGATCY 1 cut(s) 449
BstYI RGATCY 1 cut(s) 449
BstZ17I GTATAC 1 cut(s) 500
BsuRI GGCC 2 cut(s) 223, 366
BtrI CACGTC 1 cut(s) 434
BtsCI GGATG 3 cut(s) 178, 535, 639
Cac8I GCNNGC 4 cut(s) 55, 69, 598, 651
CaiI CAGNNNCTG 2 cut(s) 149, 649
CfoI GCGC 1 cut(s) 104
Cfr13I GGNCC 1 cut(s) 200
Csp6I GTAC 2 cut(s) 313, 424
CviAII CATG 4 cut(s) 23, 112, 204, 563
CviQI GTAC 2 cut(s) 313, 424
DdeI CTNAG 1 cut(s) 494
DpnI GATC 1 cut(s) 451
DpnII GATC 1 cut(s) 449
DrdI GACNNNNNNGTC 1 cut(s) 327
DseDI GACNNNNNNGTC 1 cut(s) 327
Eco105I TACGTA 1 cut(s) 312
Eco130I CCWWGG 1 cut(s) 72
Eco47I GGWCC 1 cut(s) 200
Eco57I CTGAAG 2 cut(s) 438, 545
EcoNI CCTNNNNNAGG 1 cut(s) 371
EcoRII CCWGG 2 cut(s) 586, 642
EcoT14I CCWWGG 1 cut(s) 72
ErhI CCWWGG 1 cut(s) 72
FaeI CATG 4 cut(s) 26, 115, 207, 566
FaqI GGGAC 1 cut(s) 581
FatI CATG 4 cut(s) 22, 111, 203, 562
FblI GTMKAC 1 cut(s) 499
Fnu4HI GCNGC 1 cut(s) 141
FokI GGATG 3 cut(s) 185, 542, 646
Fsp4HI GCNGC 1 cut(s) 141
FspBI CTAG 1 cut(s) 546
GlaI GCGC 1 cut(s) 103
GluI GCNGC 1 cut(s) 141
HaeIII GGCC 2 cut(s) 223, 366
HhaI GCGC 1 cut(s) 104
Hin1II CATG 4 cut(s) 26, 115, 207, 566
Hin6I GCGC 1 cut(s) 102
HinP1I GCGC 1 cut(s) 102
HindIII AAGCTT 2 cut(s) 55, 598
HinfI GANTC 3 cut(s) 78, 352, 466
Hpy166II GTNNAC 3 cut(s) 315, 382, 500
Hpy188I TCNGA 3 cut(s) 484, 512, 525
Hpy188III TCNNGA 1 cut(s) 456
Hpy8I GTNNAC 3 cut(s) 315, 382, 500
HpyAV CCTTC 2 cut(s) 367, 520
HpyCH4III ACNGT 2 cut(s) 131, 423
HpyCH4IV ACGT 3 cut(s) 311, 433, 570
HpyCH4V TGCA 7 cut(s) 53, 143, 241, 252, 262, 596, 659
HpyF10VI GCNNNNNNNGC 2 cut(s) 50, 146
HpyF3I CTNAG 1 cut(s) 494
HpySE526I ACGT 3 cut(s) 311, 433, 570
Hsp92II CATG 4 cut(s) 26, 115, 207, 566
HspAI GCGC 1 cut(s) 102
Kzo9I GATC 1 cut(s) 449
LmnI GCTCC 1 cut(s) 646
Lsp1109I GCAGC 1 cut(s) 127
LweI GCATC 1 cut(s) 520
MaeI CTAG 1 cut(s) 546
MaeII ACGT 3 cut(s) 311, 433, 570
MaeIII GTNAC 2 cut(s) 131, 268
MalI GATC 1 cut(s) 451
MboI GATC 1 cut(s) 449
MboII GAAGA 3 cut(s) 40, 444, 562
MfeI CAATTG 2 cut(s) 95, 410
MflI RGATCY 1 cut(s) 449
MhlI GDGCHC 1 cut(s) 627
MluCI AATT 8 cut(s) 16, 48, 82, 95, 243, 410, 608, 616
MmeI TCCRAC 1 cut(s) 145
MnlI CCTC 3 cut(s) 240, 330, 514
MroXI GAANNNNTTC 1 cut(s) 82
MseI TTAA 3 cut(s) 15, 218, 667
MslI CAYNNNNRTG 1 cut(s) 432
MspR9I CCNGG 2 cut(s) 588, 644
MunI CAATTG 2 cut(s) 95, 410
MvaI CCWGG 2 cut(s) 588, 644
MwoI GCNNNNNNNGC 2 cut(s) 50, 146
NdeII GATC 1 cut(s) 449
NlaIII CATG 4 cut(s) 26, 115, 207, 566
NmuCI GTSAC 1 cut(s) 131
OliI CACNNNNGTG 1 cut(s) 432
PdmI GAANNNNTTC 1 cut(s) 82
PfeI GAWTC 3 cut(s) 78, 352, 466
PflMI CCANNNNNTGG 1 cut(s) 649
PfoI TCCNGGA 1 cut(s) 642
PkrI GCNGC 1 cut(s) 142
Ppu21I YACGTR 1 cut(s) 312
PshAI GACNNNNGTC 1 cut(s) 391
Psp6I CCWGG 2 cut(s) 586, 642
PspGI CCWGG 2 cut(s) 586, 642
PspPI GGNCC 1 cut(s) 200
PstI CTGCAG 1 cut(s) 145
PstNI CAGNNNCTG 2 cut(s) 149, 649
PsuI RGATCY 1 cut(s) 449
RsaI GTAC 2 cut(s) 314, 425
RsaNI GTAC 2 cut(s) 313, 424
RseI CAYNNNNRTG 1 cut(s) 432
SaqAI TTAA 3 cut(s) 15, 218, 667
SatI GCNGC 1 cut(s) 141
Sau3AI GATC 1 cut(s) 449
Sau96I GGNCC 1 cut(s) 200
ScrFI CCNGG 2 cut(s) 588, 644
SduI GDGCHC 1 cut(s) 627
SfaNI GCATC 1 cut(s) 520
SfcI CTRYAG 1 cut(s) 141
SinI GGWCC 1 cut(s) 200
SmiMI CAYNNNNRTG 1 cut(s) 432
SnaBI TACGTA 1 cut(s) 312
Sse9I AATT 8 cut(s) 16, 48, 82, 95, 243, 410, 608, 616
SspMI CTAG 1 cut(s) 546
StyD4I CCNGG 2 cut(s) 586, 642
StyI CCWWGG 1 cut(s) 72
TaaI ACNGT 2 cut(s) 131, 423
TaiI ACGT 3 cut(s) 314, 436, 573
TasI AATT 8 cut(s) 16, 48, 82, 95, 243, 410, 608, 616
TfiI GAWTC 3 cut(s) 78, 352, 466
Tru1I TTAA 3 cut(s) 15, 218, 667
Tru9I TTAA 3 cut(s) 15, 218, 667
TseFI GTSAC 1 cut(s) 131
TseI GCWGC 1 cut(s) 140
Tsp45I GTSAC 1 cut(s) 131
TspDTI ATGAA 2 cut(s) 122, 621
TspGWI ACGGA 1 cut(s) 399
Van91I CCANNNNNTGG 1 cut(s) 649
VpaK11BI GGWCC 1 cut(s) 200
XagI CCTNNNNNAGG 1 cut(s) 371
XapI RAATTY 2 cut(s) 608, 616
XmiI GTMKAC 1 cut(s) 499
XmnI GAANNNNTTC 1 cut(s) 82
XspI CTAG 1 cut(s) 546
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.