RchiOBHm_Chr5g0044861

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000340
Physical Location & Seq
Forward (+)
40335515 .. 40338140
2626 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32300

Sequence Viewer

Length: 861 bp
ATGAACTTGAACAAATCCAAGCTTCAGGAGATGTGCCAAGCCAGAGGTTGGACCTTCCCCAAGTACAGCAGCAACCAGCAAGGCCCACCTCACCGACCTCGCTTCTCAGCCTCTGTGCTCGTCCATGGCTTCACCTTCAACACTAAAACTATGCTGACCTCTAAGAAAGAAGCCGAGTGCTGTGCTGCTAGGTTGGCCTTGGCTTACTTCGATGAAAACCCACAACCACCCCGGCCCAAATGCACCAAGTGTTTCTCTTTCCCGGCTCAGCCTTCTCATATACCTTCACTTCCTCAACCTTCATCACCAGGTTTGCCGTATCTCACATACAAGGAGAAAGAGATATGGAATGAGACAACTAGCACAGAGGGAAAGAAGGACACTTCAGAAGAGAGAAAGCTATGGCAGAGAGAAAAGCATCAACTTCAACTAAAGAACATTGAATTGGAGAATCAGATTGATATGAAAAAGATTGAGCTGGAGCACTGCCGCACGGAGCTACAGCATATGAATGAGAGAGCAGAATCAGAGCAGAAGAAAGCAGAAAATCTGATAGCCCTGGCAGAAAAGAGAAAGAGAGAAAATGAGAAGCTTCACTCAGAAATAATTGAATTGAAAGACCAGCTCCAAGCCAAACAGGCAGTAAATGAGGATTTTGAAGCCCAGAAGAAGATTAAAGCACTTGAACAAATGTTAAAGGAGAAGGCGCAGGAGCTTACTGATCTGTCAGAATTTTACAATGCACTGATTTTCAAGGAGAGGAGCAATAATGATGAGCTGCAGGGGGCCCGTAGAGAGTTAATTGAGGGACTGAAAAATCATTCAAAAATCTATATTGGTGTACGTGAAGACATTGGGTGA
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

286

Amino Acids

33.28

Weight (kDa)

8.38

Isoelectric Point (pI)

56.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 5 - 69 1e-12 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
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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) 490
AcsI RAATTY 1 cut(s) 731
AcuI CTGAAG 2 cut(s) 8, 369
AdeI CACNNNGTG 1 cut(s) 249
AfaI GTAC 2 cut(s) 65, 843
AfiI CCNNNNNNNGG 1 cut(s) 48
AjnI CCWGG 2 cut(s) 307, 558
AjuI GAANNNNNNNTTGG 2 cut(s) 428, 460
AluBI AGCT 8 cut(s) 22, 400, 478, 499, 592, 625, 715, 778
AluI AGCT 8 cut(s) 22, 400, 478, 499, 592, 625, 715, 778
Alw21I GWGCWC 2 cut(s) 120, 486
Alw26I GTCTC 1 cut(s) 347
AlwNI CAGNNNCTG 1 cut(s) 113
AoxI GGCC 4 cut(s) 82, 195, 233, 786
ApaI GGGCCC 1 cut(s) 790
ApeKI GCWGC 3 cut(s) 69, 185, 778
ApoI RAATTY 1 cut(s) 731
AspLEI GCGC 1 cut(s) 709
AspS9I GGNCC 5 cut(s) 51, 83, 234, 786, 787
AsuC2I CCSGG 2 cut(s) 232, 263
AsuHPI GGTGA 3 cut(s) 83, 124, 297
AvaII GGWCC 1 cut(s) 51
BaeGI GKGCMC 1 cut(s) 790
BanII GRGCYC 1 cut(s) 790
BbsI GAAGAC 1 cut(s) 855
Bbv12I GWGCWC 2 cut(s) 120, 486
BbvI GCAGC 3 cut(s) 81, 172, 765
BceAI ACGGC 1 cut(s) 301
BcgI CGANNNNNNTGC 2 cut(s) 164, 198
BciT130I CCWGG 2 cut(s) 309, 560
BcnI CCSGG 2 cut(s) 232, 263
BcoDI GTCTC 1 cut(s) 347
BfaI CTAG 2 cut(s) 189, 360
BfmI CTRYAG 2 cut(s) 500, 779
BglI GCCNNNNNGGC 1 cut(s) 638
BisI GCNGC 4 cut(s) 70, 186, 490, 779
BlpI GCTNAGC 1 cut(s) 267
BlsI GCNGC 4 cut(s) 71, 187, 491, 780
Bme1390I CCNGG 4 cut(s) 232, 263, 309, 560
Bme18I GGWCC 1 cut(s) 51
BmgT120I GGNCC 5 cut(s) 51, 83, 234, 786, 787
BmiI GGNNCC 2 cut(s) 787, 788
BmrFI CCNGG 4 cut(s) 232, 263, 309, 560
BmsI GCATC 1 cut(s) 427
BpiI GAAGAC 1 cut(s) 855
BpmI CTGGAG 1 cut(s) 500
Bpu1102I GCTNAGC 1 cut(s) 267
BpuMI CCSGG 2 cut(s) 232, 263
BsaAI YACGTR 1 cut(s) 845
BsaJI CCNNGG 4 cut(s) 124, 198, 230, 558
Bsc4I CCNNNNNNNGG 1 cut(s) 48
BseBI CCWGG 2 cut(s) 309, 560
BseDI CCNNGG 4 cut(s) 124, 198, 230, 558
BseLI CCNNNNNNNGG 1 cut(s) 48
BseMII CTCAG 3 cut(s) 120, 281, 612
BseRI GAGGAG 1 cut(s) 775
BseSI GKGCMC 1 cut(s) 790
BseXI GCAGC 3 cut(s) 81, 172, 765
BshFI GGCC 4 cut(s) 84, 197, 235, 788
BsiHKAI GWGCWC 2 cut(s) 120, 486
BsiSI CCGG 2 cut(s) 232, 263
BslFI GGGAC 1 cut(s) 822
BslI CCNNNNNNNGG 1 cut(s) 48
BsmAI GTCTC 1 cut(s) 347
BsmFI GGGAC 1 cut(s) 822
BsnI GGCC 4 cut(s) 84, 197, 235, 788
Bsp120I GGGCCC 1 cut(s) 786
Bsp1286I GDGCHC 3 cut(s) 120, 486, 790
Bsp143I GATC 1 cut(s) 721
Bsp1720I GCTNAGC 1 cut(s) 267
Bsp19I CCATGG 1 cut(s) 124
BspACI CCGC 1 cut(s) 490
BspANI GGCC 4 cut(s) 84, 197, 235, 788
BspCNI CTCAG 3 cut(s) 119, 280, 611
BspLI GGNNCC 2 cut(s) 787, 788
BspMAI CTGCAG 1 cut(s) 783
BssECI CCNNGG 4 cut(s) 124, 198, 230, 558
BssMI GATC 1 cut(s) 721
BssT1I CCWWGG 2 cut(s) 124, 198
Bst2UI CCWGG 2 cut(s) 309, 560
Bst6I CTCTTC 1 cut(s) 384
BstBAI YACGTR 1 cut(s) 845
BstDEI CTNAG 4 cut(s) 106, 162, 267, 598
BstDSI CCRYGG 1 cut(s) 124
BstHHI GCGC 1 cut(s) 709
BstKTI GATC 1 cut(s) 724
BstMAI GTCTC 1 cut(s) 347
BstMBI GATC 1 cut(s) 721
BstMWI GCNNNNNNNGC 2 cut(s) 194, 638
BstNI CCWGG 2 cut(s) 309, 560
BstSCI CCNGG 4 cut(s) 230, 261, 307, 558
BstSFI CTRYAG 2 cut(s) 500, 779
BstSLI GKGCMC 1 cut(s) 790
BstV1I GCAGC 3 cut(s) 81, 172, 765
BstV2I GAAGAC 1 cut(s) 855
BsuRI GGCC 4 cut(s) 84, 197, 235, 788
BtgI CCRYGG 1 cut(s) 124
BtsI GCAGTG 1 cut(s) 484
BtsIMutI CAGTG 2 cut(s) 484, 743
CaiI CAGNNNCTG 1 cut(s) 113
CfoI GCGC 1 cut(s) 709
Cfr13I GGNCC 5 cut(s) 51, 83, 234, 786, 787
CsiI ACCWGGT 1 cut(s) 307
Csp6I GTAC 2 cut(s) 64, 842
CviAII CATG 1 cut(s) 125
CviQI GTAC 2 cut(s) 64, 842
DdeI CTNAG 4 cut(s) 106, 162, 267, 598
DpnI GATC 1 cut(s) 723
DpnII GATC 1 cut(s) 721
DraIII CACNNNGTG 1 cut(s) 249
Eam1104I CTCTTC 1 cut(s) 384
EarI CTCTTC 1 cut(s) 384
Eco130I CCWWGG 2 cut(s) 124, 198
Eco24I GRGCYC 1 cut(s) 790
Eco47I GGWCC 1 cut(s) 51
Eco57I CTGAAG 2 cut(s) 8, 369
EcoO109I RGGNCCY 1 cut(s) 786
EcoRII CCWGG 2 cut(s) 307, 558
EcoT14I CCWWGG 2 cut(s) 124, 198
EcoT38I GRGCYC 1 cut(s) 790
ErhI CCWWGG 2 cut(s) 124, 198
FaeI CATG 1 cut(s) 128
FaqI GGGAC 1 cut(s) 822
FatI CATG 1 cut(s) 124
FauNDI CATATG 1 cut(s) 507
Fnu4HI GCNGC 4 cut(s) 70, 186, 490, 779
FriOI GRGCYC 1 cut(s) 790
Fsp4HI GCNGC 4 cut(s) 70, 186, 490, 779
FspBI CTAG 2 cut(s) 189, 360
GlaI GCGC 1 cut(s) 708
GluI GCNGC 4 cut(s) 70, 186, 490, 779
GsuI CTGGAG 1 cut(s) 500
HaeIII GGCC 4 cut(s) 84, 197, 235, 788
HapII CCGG 2 cut(s) 232, 263
HhaI GCGC 1 cut(s) 709
Hin1II CATG 1 cut(s) 128
Hin6I GCGC 1 cut(s) 707
HinP1I GCGC 1 cut(s) 707
HindIII AAGCTT 2 cut(s) 20, 590
HinfI GANTC 2 cut(s) 451, 524
HpaII CCGG 2 cut(s) 232, 263
HphI GGTGA 3 cut(s) 83, 124, 297
Hpy166II GTNNAC 1 cut(s) 842
Hpy188I TCNGA 6 cut(s) 388, 456, 529, 552, 601, 730
Hpy188III TCNNGA 1 cut(s) 26
Hpy8I GTNNAC 1 cut(s) 842
HpyAV CCTTC 7 cut(s) 64, 145, 282, 294, 309, 370, 697
HpyCH4IV ACGT 1 cut(s) 844
HpyCH4V TGCA 3 cut(s) 243, 743, 781
HpyF10VI GCNNNNNNNGC 2 cut(s) 194, 638
HpyF3I CTNAG 4 cut(s) 106, 162, 267, 598
HpySE526I ACGT 1 cut(s) 844
Hsp92II CATG 1 cut(s) 128
HspAI GCGC 1 cut(s) 707
Kzo9I GATC 1 cut(s) 721
LmnI GCTCC 5 cut(s) 481, 496, 630, 712, 762
Lsp1109I GCAGC 3 cut(s) 81, 172, 765
LweI GCATC 1 cut(s) 427
MabI ACCWGGT 1 cut(s) 307
MaeI CTAG 2 cut(s) 189, 360
MaeII ACGT 1 cut(s) 844
MalI GATC 1 cut(s) 723
MboI GATC 1 cut(s) 721
MboII GAAGA 5 cut(s) 401, 547, 679, 682, 860
MhlI GDGCHC 3 cut(s) 120, 486, 790
MluCI AATT 5 cut(s) 443, 606, 611, 731, 801
MmeI TCCRAC 1 cut(s) 29
MseI TTAA 3 cut(s) 675, 695, 800
MslI CAYNNNNRTG 1 cut(s) 510
MspI CCGG 2 cut(s) 232, 263
MspR9I CCNGG 4 cut(s) 232, 263, 309, 560
MvaI CCWGG 2 cut(s) 309, 560
MwoI GCNNNNNNNGC 2 cut(s) 194, 638
NciI CCSGG 2 cut(s) 232, 263
NcoI CCATGG 1 cut(s) 124
NdeI CATATG 1 cut(s) 507
NdeII GATC 1 cut(s) 721
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 2 cut(s) 787, 788
NmeAIII GCCGAG 1 cut(s) 199
PfeI GAWTC 2 cut(s) 451, 524
PflMI CCANNNNNTGG 1 cut(s) 48
PkrI GCNGC 4 cut(s) 71, 187, 491, 780
Ppu21I YACGTR 1 cut(s) 845
Psp6I CCWGG 2 cut(s) 307, 558
PspGI CCWGG 2 cut(s) 307, 558
PspN4I GGNNCC 2 cut(s) 787, 788
PspOMI GGGCCC 1 cut(s) 786
PspPI GGNCC 5 cut(s) 51, 83, 234, 786, 787
PstI CTGCAG 1 cut(s) 783
PstNI CAGNNNCTG 1 cut(s) 113
RsaI GTAC 2 cut(s) 65, 843
RsaNI GTAC 2 cut(s) 64, 842
RseI CAYNNNNRTG 1 cut(s) 510
SaqAI TTAA 3 cut(s) 675, 695, 800
SatI GCNGC 4 cut(s) 70, 186, 490, 779
Sau3AI GATC 1 cut(s) 721
Sau96I GGNCC 5 cut(s) 51, 83, 234, 786, 787
ScrFI CCNGG 4 cut(s) 232, 263, 309, 560
SduI GDGCHC 3 cut(s) 120, 486, 790
SexAI ACCWGGT 1 cut(s) 307
SfaNI GCATC 1 cut(s) 427
SfcI CTRYAG 2 cut(s) 500, 779
SinI GGWCC 1 cut(s) 51
SmiMI CAYNNNNRTG 1 cut(s) 510
Sse9I AATT 5 cut(s) 443, 606, 611, 731, 801
SsiI CCGC 1 cut(s) 490
SspMI CTAG 2 cut(s) 189, 360
StyD4I CCNGG 4 cut(s) 230, 261, 307, 558
StyI CCWWGG 2 cut(s) 124, 198
TaiI ACGT 1 cut(s) 847
TaqI TCGA 1 cut(s) 210
TasI AATT 5 cut(s) 443, 606, 611, 731, 801
TatI WGTACW 1 cut(s) 63
TauI GCSGC 1 cut(s) 492
TfiI GAWTC 2 cut(s) 451, 524
Tru1I TTAA 3 cut(s) 675, 695, 800
Tru9I TTAA 3 cut(s) 675, 695, 800
TscAI CASTG 2 cut(s) 491, 750
TseI GCWGC 3 cut(s) 69, 185, 778
TspDTI ATGAA 5 cut(s) 17, 228, 291, 479, 524
TspGWI ACGGA 1 cut(s) 509
TspRI CASTG 2 cut(s) 491, 750
Van91I CCANNNNNTGG 1 cut(s) 48
VpaK11BI GGWCC 1 cut(s) 51
XapI RAATTY 1 cut(s) 731
XspI CTAG 2 cut(s) 189, 360
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.