Rw5G027930

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000340
Physical Location & Seq
Forward (+)
41647336 .. 41651086
3751 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G027930.1

Sequence Viewer

Length: 897 bp
ATGAACTTGAACAAATCCAAGCTTCAGGAGATGTGCCAAGCCAGAGGTTGGACCTTCCCCAAGTACAGCAGCAACCAGCAAGGCCCACCTCACCGACCTCGCTTCTCAGCCTCTGTGCTCGTCCATGGCTTCACCTTCAACACTAAAACTATGCTGACCTCTAAGAAAGAAGCCGAGTGCTTTGCTGCTGGCTTGGCCTTGGATTACTTCGATGAAAACCCACAACCACCCCACCGTTTCTATTTGCTCTTTGGTTCTGATACTTGTCTTGATAAATTAGCATCTCTGCCTTTTAGCACAGAGGGAAAGAAGGACACTTACGAACTGGAGCTAATGTTGGCAGAAGAGAGAAAGCTATGGCAGAGAGAAAAGCATCAGCTTCAACTAAAGAACATTGAATTGGAGAATCAGATTGATATGAAAAAGAATGAGCTGGAGCACTGCCGCAAGGAGCTGCAACATATGAATGAGAGAGCAGAATCAGAGCAGAAGAGAGCAGATAATCTGATAGCGCTGGCAGAAAAGAGAAAGAGAGAAAATGAGAAACTTCACTCAGAAATAATTGAATTGAAAGACCAGCTCCAAGCCAAACAGGCAGTAAATGAGGATTTTGAAGCCCAGAAGAAGATTAAAGCACTTGAACAAACGTTAAAGGAGAAGGCGCAGGAGCTTACTGATCTGTCAGAATTTTACAATCCACTGATTTTCAAGGAGAGGAGCAATAATGATGAGCTGCAGGGGGCCCGTAAAGAGTTAATTGAGAGTTTGCTGCTCGTAATGAGTTGGTTGAAGGCTTGTTTACAAAAAAGACAACTGGAAACTTTCTCAAGGTGGCAAGATTGGGTGTTTTTTTTTTTTTTTTGGTTTCCAACACCTGTGTGCATTGAAAGTGGATGA
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
No domains found.

Protein Analysis

298

Amino Acids

35.22

Weight (kDa)

6.43

Isoelectric Point (pI)

54.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 5 - 68 2.5e-10 Double-stranded RNA binding motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000340)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g01090 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g36251 FvH4_3g36251 FvH4_3g36252 FvH4_3g36252 FvH4_3g36252 FvH4_3g36252 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_7g32330
prunus_persica Prupe.6G075600_v2.0.a1 Prupe.6G075700_v2.0.a1
pyrus_communis pycom01g15630
rosa_chinensis RchiOBHm_Chr2g0085841 RchiOBHm_Chr5g0044861 RchiOBHm_Chr5g0044871 RchiOBHm_Chr5g0044881 RchiOBHm_Chr5g0044991 RchiOBHm_Chr5g0045031 RchiOBHm_Chr5g0045041 RchiOBHm_Chr5g0057601 RchiOBHm_Chr5g0062541 RchiOBHm_Chr5g0065071
rosa_laevigata RLG00000002367 RLG00000015724 RLG00000019361 RLG00000034303 RLG00000034306 RLG00000034309 RLG00000034314 RLG00000034321 RLG00000035772 RLG00000035776
rosa_multiflora Rmu_co8361081.1_g000001 Rmu_co8459613.1_g000001 Rmu_sc0001648.1_g000038 Rmu_sc0001648.1_g000049 Rmu_sc0001748.1_g000010 Rmu_sc0002915.1_g000019 Rmu_sc0003352.1_g000043 Rmu_sc0004567.1_g000020 Rmu_sc0004720.1_g000006 Rmu_sc0004730.1_g000006 Rmu_sc0007421.1_g000010 Rmu_sc0008894.1_g000003 Rmu_sc0009359.1_g000002 Rmu_sc0015213.1_g000016
rosa_roxburghii Rroxscaffold_1G00015930 Rroxscaffold_1G00016050 Rroxscaffold_1G00016250 Rroxscaffold_1G00036100 Rroxscaffold_1G00036110 Rroxscaffold_1G00036180 Rroxscaffold_2G00154970 Rroxscaffold_7G00201680
rosa_rugosa Rorug01G0463800 Rorug01G0463900 Rorug01G0464000.1 Rorug01G0464100 Rorug01G0464100 Rorug01G0464200 Rorug01G0464200 Rorug02G0276400 Rorug05G0219500 Rorug05G0219600 Rorug05G0219600 Rorug05G0219800 Rorug05G0220200 Rorug05G0369900 Rorug05G0370000
rosa_samantha Rh1AG259700 Rh2BG013700 Rh2BG456700 Rh2CG014100 Rh2DG015400 Rh2DG466500 Rh4BG040500 Rh5AG273800 Rh5AG301300 Rh5AG301900 Rh5AG426100 Rh5AG428500 Rh5BG308600 Rh5BG309600 Rh5BG443600 Rh5CG335400 Rh5CG335700 Rh5CG335900 Rh5CG336200 Rh5CG411400 Rh5CG411500 Rh5CG464000 Rh5CG465900 Rh6DG082100
rosa_wichuraiana Rw2G001140 Rw5G027930 Rw5G040030 Rw5G040210 Rw5G040230 Rw6G016420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 48
AciI CCGC 1 cut(s) 445
AclI AACGTT 1 cut(s) 647
AcsI RAATTY 1 cut(s) 686
AcuI CTGAAG 1 cut(s) 8
AfaI GTAC 1 cut(s) 65
AfeI AGCGCT 1 cut(s) 513
AfiI CCNNNNNNNGG 1 cut(s) 48
AjuI GAANNNNNNNTTGG 2 cut(s) 383, 415
AleI CACNNNNGTG 1 cut(s) 877
AluBI AGCT 9 cut(s) 22, 331, 355, 379, 433, 454, 580, 670, 733
AluI AGCT 9 cut(s) 22, 331, 355, 379, 433, 454, 580, 670, 733
Alw21I GWGCWC 2 cut(s) 120, 441
AlwNI CAGNNNCTG 1 cut(s) 113
Aor51HI AGCGCT 1 cut(s) 513
AoxI GGCC 3 cut(s) 82, 195, 741
ApaI GGGCCC 1 cut(s) 745
ApeKI GCWGC 5 cut(s) 69, 185, 454, 733, 769
ApoI RAATTY 1 cut(s) 686
AspLEI GCGC 2 cut(s) 514, 664
AspS9I GGNCC 4 cut(s) 51, 83, 741, 742
AsuHPI GGTGA 2 cut(s) 83, 124
AvaII GGWCC 1 cut(s) 51
BaeGI GKGCMC 1 cut(s) 745
BanII GRGCYC 1 cut(s) 745
BarI GAAGNNNNNNTAC 2 cut(s) 302, 334
Bbv12I GWGCWC 2 cut(s) 120, 441
BbvI GCAGC 5 cut(s) 81, 172, 441, 720, 756
BcgI CGANNNNNNTGC 2 cut(s) 164, 198
BfmI CTRYAG 1 cut(s) 734
BfoI RGCGCY 1 cut(s) 515
BglI GCCNNNNNGGC 1 cut(s) 593
BisI GCNGC 6 cut(s) 70, 186, 445, 455, 734, 770
BlsI GCNGC 6 cut(s) 71, 187, 446, 456, 735, 771
Bme18I GGWCC 1 cut(s) 51
BmgT120I GGNCC 4 cut(s) 51, 83, 741, 742
BmiI GGNNCC 2 cut(s) 742, 743
BmsI GCATC 2 cut(s) 290, 382
BpmI CTGGAG 2 cut(s) 347, 455
BpuEI CTTGAG 1 cut(s) 811
BsaJI CCNNGG 2 cut(s) 124, 198
BsaXI ACNNNNNCTCC 2 cut(s) 320, 350
Bsc4I CCNNNNNNNGG 1 cut(s) 48
Bse1I ACTGG 2 cut(s) 330, 819
BseDI CCNNGG 2 cut(s) 124, 198
BseLI CCNNNNNNNGG 1 cut(s) 48
BseMII CTCAG 2 cut(s) 120, 567
BseNI ACTGG 2 cut(s) 330, 819
BseRI GAGGAG 1 cut(s) 730
BseSI GKGCMC 1 cut(s) 745
BseXI GCAGC 5 cut(s) 81, 172, 441, 720, 756
BshFI GGCC 3 cut(s) 84, 197, 743
BsiHKAI GWGCWC 2 cut(s) 120, 441
BslI CCNNNNNNNGG 1 cut(s) 48
BsnI GGCC 3 cut(s) 84, 197, 743
Bsp120I GGGCCC 1 cut(s) 741
Bsp1286I GDGCHC 3 cut(s) 120, 441, 745
Bsp143I GATC 1 cut(s) 676
Bsp19I CCATGG 1 cut(s) 124
BspACI CCGC 1 cut(s) 445
BspANI GGCC 3 cut(s) 84, 197, 743
BspCNI CTCAG 2 cut(s) 119, 566
BspLI GGNNCC 2 cut(s) 742, 743
BspMAI CTGCAG 1 cut(s) 738
BsrI ACTGG 2 cut(s) 330, 819
BssECI CCNNGG 2 cut(s) 124, 198
BssMI GATC 1 cut(s) 676
BssT1I CCWWGG 2 cut(s) 124, 198
Bst4CI ACNGT 1 cut(s) 236
Bst6I CTCTTC 2 cut(s) 339, 485
BstC8I GCNNGC 2 cut(s) 190, 516
BstDEI CTNAG 3 cut(s) 106, 162, 553
BstDSI CCRYGG 1 cut(s) 124
BstH2I RGCGCY 1 cut(s) 515
BstHHI GCGC 2 cut(s) 514, 664
BstKTI GATC 1 cut(s) 679
BstMBI GATC 1 cut(s) 676
BstMWI GCNNNNNNNGC 2 cut(s) 194, 593
BstSFI CTRYAG 1 cut(s) 734
BstSLI GKGCMC 1 cut(s) 745
BstV1I GCAGC 5 cut(s) 81, 172, 441, 720, 756
BsuRI GGCC 3 cut(s) 84, 197, 743
BtgI CCRYGG 1 cut(s) 124
BtsI GCAGTG 1 cut(s) 439
BtsIMutI CAGTG 2 cut(s) 439, 698
Cac8I GCNNGC 2 cut(s) 190, 516
CaiI CAGNNNCTG 1 cut(s) 113
CfoI GCGC 2 cut(s) 514, 664
Cfr13I GGNCC 4 cut(s) 51, 83, 741, 742
Csp6I GTAC 1 cut(s) 64
CviAII CATG 1 cut(s) 125
CviQI GTAC 1 cut(s) 64
DdeI CTNAG 3 cut(s) 106, 162, 553
DpnI GATC 1 cut(s) 678
DpnII GATC 1 cut(s) 676
Eam1104I CTCTTC 2 cut(s) 339, 485
EarI CTCTTC 2 cut(s) 339, 485
Eco130I CCWWGG 2 cut(s) 124, 198
Eco24I GRGCYC 1 cut(s) 745
Eco47I GGWCC 1 cut(s) 51
Eco47III AGCGCT 1 cut(s) 513
Eco57I CTGAAG 1 cut(s) 8
EcoO109I RGGNCCY 1 cut(s) 741
EcoT14I CCWWGG 2 cut(s) 124, 198
EcoT38I GRGCYC 1 cut(s) 745
ErhI CCWWGG 2 cut(s) 124, 198
FaeI CATG 1 cut(s) 128
FaiI YATR 6 cut(s) 126, 152, 358, 419, 462, 464
FatI CATG 1 cut(s) 124
FauNDI CATATG 1 cut(s) 462
Fnu4HI GCNGC 6 cut(s) 70, 186, 445, 455, 734, 770
FriOI GRGCYC 1 cut(s) 745
Fsp4HI GCNGC 6 cut(s) 70, 186, 445, 455, 734, 770
GlaI GCGC 2 cut(s) 513, 663
GluI GCNGC 6 cut(s) 70, 186, 445, 455, 734, 770
GsuI CTGGAG 2 cut(s) 347, 455
HaeII RGCGCY 1 cut(s) 515
HaeIII GGCC 3 cut(s) 84, 197, 743
HhaI GCGC 2 cut(s) 514, 664
Hin1II CATG 1 cut(s) 128
Hin6I GCGC 2 cut(s) 512, 662
HinP1I GCGC 2 cut(s) 512, 662
HindIII AAGCTT 1 cut(s) 20
HinfI GANTC 2 cut(s) 406, 479
HphI GGTGA 2 cut(s) 83, 124
Hpy166II GTNNAC 1 cut(s) 800
Hpy188I TCNGA 6 cut(s) 259, 411, 484, 507, 556, 685
Hpy188III TCNNGA 2 cut(s) 26, 269
Hpy8I GTNNAC 1 cut(s) 800
HpyAV CCTTC 5 cut(s) 64, 145, 304, 652, 784
HpyCH4III ACNGT 1 cut(s) 236
HpyCH4IV ACGT 1 cut(s) 647
HpyCH4V TGCA 3 cut(s) 457, 736, 882
HpyF10VI GCNNNNNNNGC 2 cut(s) 194, 593
HpyF3I CTNAG 3 cut(s) 106, 162, 553
HpySE526I ACGT 1 cut(s) 647
Hsp92II CATG 1 cut(s) 128
HspAI GCGC 2 cut(s) 512, 662
Kzo9I GATC 1 cut(s) 676
LmnI GCTCC 6 cut(s) 328, 436, 451, 585, 667, 717
Lsp1109I GCAGC 5 cut(s) 81, 172, 441, 720, 756
LweI GCATC 2 cut(s) 290, 382
MaeII ACGT 1 cut(s) 647
MalI GATC 1 cut(s) 678
MboI GATC 1 cut(s) 676
MboII GAAGA 4 cut(s) 356, 502, 634, 637
MhlI GDGCHC 3 cut(s) 120, 441, 745
MluCI AATT 6 cut(s) 275, 398, 561, 566, 686, 756
MmeI TCCRAC 2 cut(s) 29, 893
MnlI CCTC 8 cut(s) 38, 99, 108, 121, 169, 295, 598, 708
MseI TTAA 3 cut(s) 630, 650, 755
MslI CAYNNNNRTG 2 cut(s) 465, 877
MwoI GCNNNNNNNGC 2 cut(s) 194, 593
NcoI CCATGG 1 cut(s) 124
NdeI CATATG 1 cut(s) 462
NdeII GATC 1 cut(s) 676
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 2 cut(s) 742, 743
NmeAIII GCCGAG 1 cut(s) 199
OliI CACNNNNGTG 1 cut(s) 877
PfeI GAWTC 2 cut(s) 406, 479
PflMI CCANNNNNTGG 1 cut(s) 48
PkrI GCNGC 6 cut(s) 71, 187, 446, 456, 735, 771
Psp1406I AACGTT 1 cut(s) 647
PspN4I GGNNCC 2 cut(s) 742, 743
PspOMI GGGCCC 1 cut(s) 741
PspPI GGNCC 4 cut(s) 51, 83, 741, 742
PstI CTGCAG 1 cut(s) 738
PstNI CAGNNNCTG 1 cut(s) 113
RsaI GTAC 1 cut(s) 65
RsaNI GTAC 1 cut(s) 64
RseI CAYNNNNRTG 2 cut(s) 465, 877
SaqAI TTAA 3 cut(s) 630, 650, 755
SatI GCNGC 6 cut(s) 70, 186, 445, 455, 734, 770
Sau3AI GATC 1 cut(s) 676
Sau96I GGNCC 4 cut(s) 51, 83, 741, 742
SduI GDGCHC 3 cut(s) 120, 441, 745
SfaNI GCATC 2 cut(s) 290, 382
SfcI CTRYAG 1 cut(s) 734
SinI GGWCC 1 cut(s) 51
SmiMI CAYNNNNRTG 2 cut(s) 465, 877
SmlI CTYRAG 1 cut(s) 826
SmoI CTYRAG 1 cut(s) 826
Sse9I AATT 6 cut(s) 275, 398, 561, 566, 686, 756
SsiI CCGC 1 cut(s) 445
StyI CCWWGG 2 cut(s) 124, 198
TaaI ACNGT 1 cut(s) 236
TaiI ACGT 1 cut(s) 650
TaqI TCGA 1 cut(s) 210
TasI AATT 6 cut(s) 275, 398, 561, 566, 686, 756
TatI WGTACW 1 cut(s) 63
TauI GCSGC 1 cut(s) 447
TfiI GAWTC 2 cut(s) 406, 479
Tru1I TTAA 3 cut(s) 630, 650, 755
Tru9I TTAA 3 cut(s) 630, 650, 755
TscAI CASTG 2 cut(s) 446, 705
TseI GCWGC 5 cut(s) 69, 185, 454, 733, 769
TspDTI ATGAA 4 cut(s) 17, 228, 434, 479
TspRI CASTG 2 cut(s) 446, 705
Van91I CCANNNNNTGG 1 cut(s) 48
VpaK11BI GGWCC 1 cut(s) 51
XapI RAATTY 1 cut(s) 686
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.