Rh3DG262700

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0016410
Physical Location & Seq
Reverse (-)
26095086 .. 26099556
4471 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG262700.1

Sequence Viewer

Length: 915 bp
ATGCAGGCGGTTGGGATCGGTGCTGCAGATGACTCCAGTGAAGGGGAGGCGGTGCTGCAGTTACTTATGGGCTGGCGGAGACGAAGGACGATCTGGATACGAAATGCGAACTCTCATTGCCAAACCCAATGGCTTTTCAATGCGCAAAACCCCAACAACTATCCGATCCTGCTCTCTCCAACTCACGACCTTCGAGGCCAATCCGTCGCCACTATCGGATTGGGAAAATCTGCTAGAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCCGCTTCAGTTTTATCATTTAACCACAACCCCACTTTGGGCCTCTTAGAGAAAGATCCCGGTGGTGGTGTCCCCTGGAGTTCCGCTATGAAAATATGGTCTTTCGTCTTTGTTGCAATCGGGAAAACAGTGACAGGGACTAATGGAAAATCAACTGTTGTCACTTTTGCTGGACAGATGCTTAATCATTTGGGTATCAACACATTTTTGGGGGGTAATCTTGGAAATCCACTCTCAGAGGCTGCTTTCCATTGCTTACAGAATCCCCTTCTAAAACCAAAGTTTAAGATATCGCTACATTTTTCCAGGTCGCTGTGGTGGAGTAGCAGTTACCAAATGGAAATTCCCAACAAGTACTTCTGCCCTTCTGTAGCTGTAGTGCTAAACCTTACACCTGATGATTTAGAAAGGCACAGGACAATGAGAGACTATGCACTGACTAAATGCCGGTTATTTCATCACATGAGTGATGCCAAGCTTGGGCTTCTTTGTTTTGGGAACCAGTACTTAAATGAAGCAGTTATGGGAAGCTTGGATGAAATCAATCTTGCTTGGATAGGAGCCACTCCAGGCGTAAGAATTGATATGGATGCAAAAATTGCAAGCCTGCCTTGGGAATCAATTCTCAACTACAATTGGGCGCAATGA
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

304

Amino Acids

33.5

Weight (kDa)

9.26

Isoelectric Point (pI)

30.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Mur_ligase_M PF08245 209 - 258 4.9e-07 Mur ligase middle 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) 144
AccB1I GGYRCC 1 cut(s) 266
AciI CCGC 6 cut(s) 8, 50, 76, 242, 270, 351
AclWI GGATC 3 cut(s) 23, 160, 317
AcsI RAATTY 1 cut(s) 609
AcuI CTGAAG 1 cut(s) 258
AfaI GTAC 2 cut(s) 623, 773
AfiI CCNNNNNNNGG 6 cut(s) 42, 304, 305, 332, 747, 880
AgsI TTSAA 1 cut(s) 139
AjnI CCWGG 3 cut(s) 341, 572, 835
AjuI GAANNNNNNNTTGG 4 cut(s) 594, 608, 626, 640
AleI CACNNNNGTG 1 cut(s) 732
AluBI AGCT 4 cut(s) 239, 641, 745, 798
AluI AGCT 4 cut(s) 239, 641, 745, 798
Alw26I GTCTC 2 cut(s) 73, 687
AlwI GGATC 3 cut(s) 23, 160, 317
AlwNI CAGNNNCTG 1 cut(s) 509
AoxI GGCC 2 cut(s) 196, 307
ApeKI GCWGC 4 cut(s) 23, 55, 239, 509
ApoI RAATTY 1 cut(s) 609
Asp700I GAANNNNTTC 1 cut(s) 888
AspLEI GCGC 2 cut(s) 145, 910
AspS9I GGNCC 1 cut(s) 307
AsuC2I CCSGG 1 cut(s) 327
BanI GGYRCC 1 cut(s) 266
BbvI GCAGC 4 cut(s) 10, 42, 226, 496
BciT130I CCWGG 3 cut(s) 343, 574, 837
BciVI GTATCC 1 cut(s) 90
BcnI CCSGG 1 cut(s) 327
BcoDI GTCTC 2 cut(s) 73, 687
BfaI CTAG 1 cut(s) 234
BfmI CTRYAG 4 cut(s) 24, 56, 636, 642
BfuI GTATCC 1 cut(s) 90
BisI GCNGC 6 cut(s) 24, 56, 240, 243, 270, 510
BlsI GCNGC 6 cut(s) 25, 57, 241, 244, 271, 511
BmcAI AGTACT 2 cut(s) 623, 773
Bme1390I CCNGG 4 cut(s) 327, 343, 574, 837
BmgT120I GGNCC 1 cut(s) 307
BmiI GGNNCC 3 cut(s) 268, 767, 829
BmrFI CCNGG 4 cut(s) 327, 343, 574, 837
BmsI GCATC 3 cut(s) 435, 727, 847
BplI GAGNNNNNCTC 2 cut(s) 238, 270
BpmI CTGGAG 3 cut(s) 19, 364, 819
BpuMI CCSGG 1 cut(s) 327
BsaJI CCNNGG 2 cut(s) 341, 878
BsaXI ACNNNNNCTCC 2 cut(s) 580, 610
Bsc4I CCNNNNNNNGG 6 cut(s) 42, 304, 305, 332, 747, 880
Bse118I RCCGGY 1 cut(s) 714
Bse1I ACTGG 2 cut(s) 36, 769
Bse3DI GCAATG 2 cut(s) 115, 517
BseBI CCWGG 3 cut(s) 343, 574, 837
BseDI CCNNGG 2 cut(s) 341, 878
BseGI GGATG 2 cut(s) 808, 862
BseLI CCNNNNNNNGG 6 cut(s) 42, 304, 305, 332, 747, 880
BseMI GCAATG 2 cut(s) 115, 517
BseMII CTCAG 1 cut(s) 516
BseNI ACTGG 2 cut(s) 36, 769
BseXI GCAGC 4 cut(s) 10, 42, 226, 496
BshFI GGCC 2 cut(s) 198, 309
BshNI GGYRCC 1 cut(s) 266
BsiSI CCGG 2 cut(s) 327, 715
BslFI GGGAC 2 cut(s) 323, 418
BslI CCNNNNNNNGG 6 cut(s) 42, 304, 305, 332, 747, 880
BsmAI GTCTC 2 cut(s) 73, 687
BsmBI CGTCTC 1 cut(s) 73
BsmFI GGGAC 2 cut(s) 323, 418
BsnI GGCC 2 cut(s) 198, 309
Bsp143I GATC 4 cut(s) 15, 90, 165, 322
BspACI CCGC 6 cut(s) 8, 50, 76, 242, 270, 351
BspANI GGCC 2 cut(s) 198, 309
BspCNI CTCAG 1 cut(s) 515
BspLI GGNNCC 3 cut(s) 268, 767, 829
BspMAI CTGCAG 2 cut(s) 28, 60
BspPI GGATC 3 cut(s) 23, 160, 317
BspT107I GGYRCC 1 cut(s) 266
BsrDI GCAATG 2 cut(s) 115, 517
BsrFI RCCGGY 1 cut(s) 714
BsrI ACTGG 2 cut(s) 36, 769
BssAI RCCGGY 1 cut(s) 714
BssECI CCNNGG 2 cut(s) 341, 878
BssMI GATC 4 cut(s) 15, 90, 165, 322
BssT1I CCWWGG 1 cut(s) 878
Bst2UI CCWGG 3 cut(s) 343, 574, 837
Bst4CI ACNGT 2 cut(s) 397, 424
BstAPI GCANNNNNTGC 1 cut(s) 866
BstC8I GCNNGC 5 cut(s) 6, 74, 252, 871, 875
BstDEI CTNAG 2 cut(s) 313, 502
BstF5I GGATG 2 cut(s) 808, 862
BstHHI GCGC 2 cut(s) 145, 910
BstKTI GATC 4 cut(s) 18, 93, 168, 325
BstMAI GTCTC 2 cut(s) 73, 687
BstMBI GATC 4 cut(s) 15, 90, 165, 322
BstMWI GCNNNNNNNGC 4 cut(s) 239, 251, 266, 866
BstNI CCWGG 3 cut(s) 343, 574, 837
BstSCI CCNGG 4 cut(s) 325, 341, 572, 835
BstSFI CTRYAG 4 cut(s) 24, 56, 636, 642
BstV1I GCAGC 4 cut(s) 10, 42, 226, 496
BstX2I RGATCY 1 cut(s) 322
BstYI RGATCY 1 cut(s) 322
BsuI GTATCC 1 cut(s) 90
BsuRI GGCC 2 cut(s) 198, 309
BtsCI GGATG 2 cut(s) 808, 862
BtsIMutI CAGTG 3 cut(s) 43, 402, 701
Cac8I GCNNGC 5 cut(s) 6, 74, 252, 871, 875
CaiI CAGNNNCTG 1 cut(s) 509
CfoI GCGC 2 cut(s) 145, 910
Cfr10I RCCGGY 1 cut(s) 714
Cfr13I GGNCC 1 cut(s) 307
Csp6I GTAC 2 cut(s) 622, 772
CviAII CATG 1 cut(s) 730
CviQI GTAC 2 cut(s) 622, 772
DdeI CTNAG 2 cut(s) 313, 502
DpnI GATC 4 cut(s) 17, 92, 167, 324
DpnII GATC 4 cut(s) 15, 90, 165, 322
EciI GGCGGA 1 cut(s) 91
Eco130I CCWWGG 1 cut(s) 878
Eco32I GATATC 1 cut(s) 558
Eco57I CTGAAG 1 cut(s) 258
EcoRII CCWGG 3 cut(s) 341, 572, 835
EcoRV GATATC 1 cut(s) 558
EcoT14I CCWWGG 1 cut(s) 878
ErhI CCWWGG 1 cut(s) 878
Esp3I CGTCTC 1 cut(s) 73
FaeI CATG 1 cut(s) 733
FaiI YATR 7 cut(s) 68, 356, 364, 699, 731, 791, 854
FalI AAGNNNNNCTT 2 cut(s) 862, 894
FaqI GGGAC 2 cut(s) 323, 418
FatI CATG 1 cut(s) 729
Fnu4HI GCNGC 6 cut(s) 24, 56, 240, 243, 270, 510
FokI GGATG 2 cut(s) 815, 869
Fsp4HI GCNGC 6 cut(s) 24, 56, 240, 243, 270, 510
FspBI CTAG 1 cut(s) 234
FspI TGCGCA 1 cut(s) 144
GlaI GCGC 2 cut(s) 144, 909
GluI GCNGC 6 cut(s) 24, 56, 240, 243, 270, 510
GsuI CTGGAG 3 cut(s) 19, 364, 819
HaeIII GGCC 2 cut(s) 198, 309
HapII CCGG 2 cut(s) 327, 715
HhaI GCGC 2 cut(s) 145, 910
Hin1II CATG 1 cut(s) 733
Hin6I GCGC 2 cut(s) 143, 908
HinP1I GCGC 2 cut(s) 143, 908
HindIII AAGCTT 2 cut(s) 743, 796
HinfI GANTC 3 cut(s) 32, 529, 884
HpaII CCGG 2 cut(s) 327, 715
Hpy188I TCNGA 3 cut(s) 165, 218, 505
Hpy188III TCNNGA 3 cut(s) 94, 185, 388
Hpy99I CGWCG 1 cut(s) 209
HpyAV CCTTC 5 cut(s) 35, 78, 200, 545, 642
HpyCH4III ACNGT 2 cut(s) 397, 424
HpyCH4V TGCA 7 cut(s) 4, 26, 58, 383, 701, 860, 869
HpyF10VI GCNNNNNNNGC 4 cut(s) 239, 251, 266, 866
HpyF3I CTNAG 2 cut(s) 313, 502
Hsp92II CATG 1 cut(s) 733
HspAI GCGC 2 cut(s) 143, 908
Kzo9I GATC 4 cut(s) 15, 90, 165, 322
LmnI GCTCC 1 cut(s) 827
Lsp1109I GCAGC 4 cut(s) 10, 42, 226, 496
LweI GCATC 3 cut(s) 435, 727, 847
MaeI CTAG 1 cut(s) 234
MaeIII GTNAC 4 cut(s) 60, 397, 427, 596
MalI GATC 4 cut(s) 17, 92, 167, 324
MboI GATC 4 cut(s) 15, 90, 165, 322
MfeI CAATTG 1 cut(s) 901
MflI RGATCY 1 cut(s) 322
MluCI AATT 5 cut(s) 609, 846, 864, 888, 901
MlyI GAGTC 1 cut(s) 26
MmeI TCCRAC 1 cut(s) 203
MnlI CCTC 6 cut(s) 40, 188, 240, 257, 320, 499
MroXI GAANNNNTTC 1 cut(s) 888
MseI TTAA 4 cut(s) 288, 450, 552, 776
MslI CAYNNNNRTG 1 cut(s) 732
MspI CCGG 2 cut(s) 327, 715
MspR9I CCNGG 4 cut(s) 327, 343, 574, 837
MunI CAATTG 1 cut(s) 901
MvaI CCWGG 3 cut(s) 343, 574, 837
MwoI GCNNNNNNNGC 4 cut(s) 239, 251, 266, 866
NciI CCSGG 1 cut(s) 327
NdeII GATC 4 cut(s) 15, 90, 165, 322
NlaIII CATG 1 cut(s) 733
NlaIV GGNNCC 3 cut(s) 268, 767, 829
NmuCI GTSAC 2 cut(s) 397, 427
NsbI TGCGCA 1 cut(s) 144
OliI CACNNNNGTG 1 cut(s) 732
PdmI GAANNNNTTC 1 cut(s) 888
PfeI GAWTC 2 cut(s) 529, 884
PkrI GCNGC 6 cut(s) 25, 57, 241, 244, 271, 511
PleI GAGTC 1 cut(s) 26
PpsI GAGTC 1 cut(s) 26
Psp6I CCWGG 3 cut(s) 341, 572, 835
PspGI CCWGG 3 cut(s) 341, 572, 835
PspN4I GGNNCC 3 cut(s) 268, 767, 829
PspPI GGNCC 1 cut(s) 307
PstI CTGCAG 2 cut(s) 28, 60
PstNI CAGNNNCTG 1 cut(s) 509
PsuI RGATCY 1 cut(s) 322
RsaI GTAC 2 cut(s) 623, 773
RsaNI GTAC 2 cut(s) 622, 772
RseI CAYNNNNRTG 1 cut(s) 732
SaqAI TTAA 4 cut(s) 288, 450, 552, 776
SatI GCNGC 6 cut(s) 24, 56, 240, 243, 270, 510
Sau3AI GATC 4 cut(s) 15, 90, 165, 322
Sau96I GGNCC 1 cut(s) 307
ScaI AGTACT 2 cut(s) 623, 773
SchI GAGTC 1 cut(s) 26
ScrFI CCNGG 4 cut(s) 327, 343, 574, 837
SetI ASST 9 cut(s) 192, 241, 268, 578, 643, 657, 664, 747, 800
SfaNI GCATC 3 cut(s) 435, 727, 847
SfcI CTRYAG 4 cut(s) 24, 56, 636, 642
SmiMI CAYNNNNRTG 1 cut(s) 732
Sse9I AATT 5 cut(s) 609, 846, 864, 888, 901
SsiI CCGC 6 cut(s) 8, 50, 76, 242, 270, 351
SspMI CTAG 1 cut(s) 234
StyD4I CCNGG 4 cut(s) 325, 341, 572, 835
StyI CCWWGG 1 cut(s) 878
TaaI ACNGT 2 cut(s) 397, 424
TaqI TCGA 1 cut(s) 193
TasI AATT 5 cut(s) 609, 846, 864, 888, 901
TatI WGTACW 2 cut(s) 621, 771
TauI GCSGC 2 cut(s) 245, 272
TfiI GAWTC 2 cut(s) 529, 884
Tru1I TTAA 4 cut(s) 288, 450, 552, 776
Tru9I TTAA 4 cut(s) 288, 450, 552, 776
TscAI CASTG 3 cut(s) 43, 402, 708
TseFI GTSAC 2 cut(s) 397, 427
TseI GCWGC 4 cut(s) 23, 55, 239, 509
Tsp45I GTSAC 2 cut(s) 397, 427
TspDTI ATGAA 4 cut(s) 371, 713, 795, 819
TspGWI ACGGA 1 cut(s) 193
TspRI CASTG 3 cut(s) 43, 402, 708
XapI RAATTY 1 cut(s) 609
XcmI CCANNNNNNNNNTGG 1 cut(s) 217
XmnI GAANNNNTTC 1 cut(s) 888
XspI CTAG 1 cut(s) 234
ZrmI AGTACT 2 cut(s) 623, 773
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.