RchiOBHm_Chr5g0044881

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000340
Physical Location & Seq
Forward (+)
40399598 .. 40403289
3692 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32302

Sequence Viewer

Length: 1275 bp
ATGAACTTGAACAAATCCAAGCTTCAGGAGATGTGCCAAGCCAGAGGTTGGACCTTCCCCAAGTACAGCAGCAACCAGCAAGGCCCACCTCACCGACCTCGCTTCTCAGCCTCTGTGCTCGTCCATGGCTTCACCTTCAACACTAAAACTATGCTGACCTCTAAGAAAGAAGCCGAGTGCTGTGCTGCTGGGTTGGCCTTGGATTACTTCGATGAAAACCCACAACCACCCCAGCCCAAACGCCCCAAGTGTTTCTCTTTCCCGGCTCAGCCTTCTCATATACCTTCACTTGCTCCACCTTCATCACCAGGTTTGCTGTATCACAAGCAGAATGAGATATGGAATGAGACAACTAGCACAGAGGGAAAGAAGGACACTTACGAACTGGAGCTAATGTTGGCAGAAGAGAGAAAGCTATGGCAGAGAGAAAAGCATCAGCTTCAACTAAAGAACATTGAATTGGAGAATCAGATTGATATGAAAAAGAATGAGCTGGAGCACTGCTGCAAGGAGCTACAACATATGAATGAGAGAGCAGAATCAGAGCAGAAGAAAGCAGATAATCTGATAGCGCTGGCAGAAAAGAGAAAGAGAGAAAATGAGAAGCTTCACTCAGAAATAATTGAATTGAAAGACCAGCTCCAAGCCAAACAGGCAGTAAATGAGGATTTTGAAGCCCAGAAGAAGATTAAAGCACTTGAACAAATGTTAAAGGAGAAGGCGCAGGAGCTTACTGATCTGTCAGAATTTTACAATCCACTGATTTTCAAGGAGAGGAGCAATAATGATGAGCTGCAGGGGGCCCGTAGAGAGTTAATTGAGGGACTGAAAAATCATTCAAAAATCTATATTGGCGTGAAGACATTGGGTGATCTTGACTTGAAGGCATTTCAAATTGCAGCCAAGAGAAGATGTACTGCATTAGAAGAAGCAAATGAGAGGGCAGTGGAGTTGTGCTCTATGTGGGAGGATTATGTTGGGGATTCTAAATGGAACCCATACAAGGTTATTATGGATGAGACAGGAAAAAGAACGGAAATTATTGATGAAGAAGATAAAAAGTTGAAAAATTTGAAGACTGAGCTGGGTGACGAAGTATACAAGGTGGTGACAACTTCGTTAATGGAATTGAATGAACATAATTCCAGTGGGAGGTATAAGATACAAGAGCTTTGGAATTTTAAAGCAGGGAGGAAGGCAACACTTAAAGAGGGAGTTGCTTACATTCTGAAGCAATGGAACACGCTTAAGAACACCAAGCGGCGAAGAAACTAG
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

424

Amino Acids

49.36

Weight (kDa)

8.4

Isoelectric Point (pI)

51.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 5 - 68 3.5e-11 Double-stranded RNA binding motif
XH PF03469 287 - 418 6.5e-50 XH 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: 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
AccI GTMKAC 1 cut(s) 1098
AciI CCGC 1 cut(s) 1261
AcsI RAATTY 3 cut(s) 746, 1069, 1177
AcuI CTGAAG 2 cut(s) 8, 1250
AfaI GTAC 2 cut(s) 65, 916
AfeI AGCGCT 1 cut(s) 573
AfiI CCNNNNNNNGG 3 cut(s) 48, 1003, 1152
AflII CTTAAG 1 cut(s) 1247
AjnI CCWGG 1 cut(s) 307
AjuI GAANNNNNNNTTGG 2 cut(s) 443, 475
Alw21I GWGCWC 3 cut(s) 120, 501, 959
Alw26I GTCTC 2 cut(s) 341, 1013
AlwNI CAGNNNCTG 1 cut(s) 113
Aor51HI AGCGCT 1 cut(s) 573
AoxI GGCC 3 cut(s) 82, 195, 801
ApaI GGGCCC 1 cut(s) 805
ApeKI GCWGC 5 cut(s) 69, 185, 504, 793, 899
ApoI RAATTY 3 cut(s) 746, 1069, 1177
AspLEI GCGC 2 cut(s) 574, 724
AspS9I GGNCC 4 cut(s) 51, 83, 801, 802
AsuC2I CCSGG 1 cut(s) 263
AsuHPI GGTGA 6 cut(s) 83, 124, 297, 881, 1100, 1120
AvaII GGWCC 1 cut(s) 51
BaeGI GKGCMC 1 cut(s) 805
BanII GRGCYC 1 cut(s) 805
BarI GAAGNNNNNNTAC 2 cut(s) 362, 394
BbsI GAAGAC 2 cut(s) 866, 1082
Bbv12I GWGCWC 3 cut(s) 120, 501, 959
BbvI GCAGC 5 cut(s) 81, 172, 491, 780, 911
BcgI CGANNNNNNTGC 2 cut(s) 164, 198
BciT130I CCWGG 1 cut(s) 309
BcnI CCSGG 1 cut(s) 263
BcoDI GTCTC 2 cut(s) 341, 1013
BfaI CTAG 2 cut(s) 354, 1273
BfmI CTRYAG 1 cut(s) 794
BfoI RGCGCY 1 cut(s) 575
BfrI CTTAAG 1 cut(s) 1247
BglI GCCNNNNNGGC 1 cut(s) 653
BisI GCNGC 6 cut(s) 70, 186, 505, 794, 900, 1262
BlpI GCTNAGC 1 cut(s) 267
BlsI GCNGC 6 cut(s) 71, 187, 506, 795, 901, 1263
Bme1390I CCNGG 2 cut(s) 263, 309
Bme18I GGWCC 1 cut(s) 51
BmgT120I GGNCC 4 cut(s) 51, 83, 801, 802
BmiI GGNNCC 3 cut(s) 802, 803, 995
BmrFI CCNGG 2 cut(s) 263, 309
BmsI GCATC 1 cut(s) 442
BpiI GAAGAC 2 cut(s) 866, 1082
BplI GAGNNNNNCTC 2 cut(s) 941, 973
BpmI CTGGAG 2 cut(s) 407, 515
Bpu1102I GCTNAGC 1 cut(s) 267
BpuMI CCSGG 1 cut(s) 263
BsaJI CCNNGG 2 cut(s) 124, 198
BsaXI ACNNNNNCTCC 2 cut(s) 380, 410
Bsc4I CCNNNNNNNGG 3 cut(s) 48, 1003, 1152
Bse1I ACTGG 2 cut(s) 390, 1146
Bse3DI GCAATG 1 cut(s) 1241
BseBI CCWGG 1 cut(s) 309
BseDI CCNNGG 2 cut(s) 124, 198
BseGI GGATG 1 cut(s) 1021
BseLI CCNNNNNNNGG 3 cut(s) 48, 1003, 1152
BseMI GCAATG 1 cut(s) 1241
BseMII CTCAG 4 cut(s) 120, 281, 627, 1071
BseNI ACTGG 2 cut(s) 390, 1146
BseRI GAGGAG 1 cut(s) 790
BseSI GKGCMC 1 cut(s) 805
BseXI GCAGC 5 cut(s) 81, 172, 491, 780, 911
BseYI CCCAGC 3 cut(s) 188, 231, 1084
BshFI GGCC 3 cut(s) 84, 197, 803
BsiHKAI GWGCWC 3 cut(s) 120, 501, 959
BsiSI CCGG 1 cut(s) 263
BslFI GGGAC 1 cut(s) 837
BslI CCNNNNNNNGG 3 cut(s) 48, 1003, 1152
BsmAI GTCTC 2 cut(s) 341, 1013
BsmFI GGGAC 1 cut(s) 837
BsnI GGCC 3 cut(s) 84, 197, 803
Bsp120I GGGCCC 1 cut(s) 801
Bsp1286I GDGCHC 4 cut(s) 120, 501, 805, 959
Bsp143I GATC 2 cut(s) 736, 871
Bsp1720I GCTNAGC 1 cut(s) 267
Bsp19I CCATGG 1 cut(s) 124
BspACI CCGC 1 cut(s) 1261
BspANI GGCC 3 cut(s) 84, 197, 803
BspCNI CTCAG 4 cut(s) 119, 280, 626, 1072
BspLI GGNNCC 3 cut(s) 802, 803, 995
BspMAI CTGCAG 1 cut(s) 798
BspTI CTTAAG 1 cut(s) 1247
BsrDI GCAATG 1 cut(s) 1241
BsrI ACTGG 2 cut(s) 390, 1146
BssECI CCNNGG 2 cut(s) 124, 198
BssMI GATC 2 cut(s) 736, 871
BssNAI GTATAC 1 cut(s) 1099
BssT1I CCWWGG 2 cut(s) 124, 198
Bst1107I GTATAC 1 cut(s) 1099
Bst2UI CCWGG 1 cut(s) 309
Bst6I CTCTTC 1 cut(s) 399
BstAFI CTTAAG 1 cut(s) 1247
BstC8I GCNNGC 1 cut(s) 576
BstDEI CTNAG 5 cut(s) 106, 162, 267, 613, 1080
BstDSI CCRYGG 1 cut(s) 124
BstF5I GGATG 1 cut(s) 1021
BstH2I RGCGCY 1 cut(s) 575
BstHHI GCGC 2 cut(s) 574, 724
BstKTI GATC 2 cut(s) 739, 874
BstMAI GTCTC 2 cut(s) 341, 1013
BstMBI GATC 2 cut(s) 736, 871
BstMWI GCNNNNNNNGC 2 cut(s) 194, 653
BstNI CCWGG 1 cut(s) 309
BstSCI CCNGG 2 cut(s) 261, 307
BstSFI CTRYAG 1 cut(s) 794
BstSLI GKGCMC 1 cut(s) 805
BstV1I GCAGC 5 cut(s) 81, 172, 491, 780, 911
BstV2I GAAGAC 2 cut(s) 866, 1082
BstZ17I GTATAC 1 cut(s) 1099
BsuRI GGCC 3 cut(s) 84, 197, 803
BtgI CCRYGG 1 cut(s) 124
BtsCI GGATG 1 cut(s) 1021
BtsI GCAGTG 2 cut(s) 499, 951
BtsIMutI CAGTG 4 cut(s) 499, 758, 951, 1153
Cac8I GCNNGC 1 cut(s) 576
CaiI CAGNNNCTG 1 cut(s) 113
CfoI GCGC 2 cut(s) 574, 724
Cfr13I GGNCC 4 cut(s) 51, 83, 801, 802
CsiI ACCWGGT 1 cut(s) 307
Csp6I GTAC 2 cut(s) 64, 915
CviAII CATG 1 cut(s) 125
CviQI GTAC 2 cut(s) 64, 915
DdeI CTNAG 5 cut(s) 106, 162, 267, 613, 1080
DpnI GATC 2 cut(s) 738, 873
DpnII GATC 2 cut(s) 736, 871
DraI TTTAAA 1 cut(s) 1183
Eam1104I CTCTTC 1 cut(s) 399
EarI CTCTTC 1 cut(s) 399
Eco130I CCWWGG 2 cut(s) 124, 198
Eco24I GRGCYC 1 cut(s) 805
Eco47I GGWCC 1 cut(s) 51
Eco47III AGCGCT 1 cut(s) 573
Eco57I CTGAAG 2 cut(s) 8, 1250
EcoO109I RGGNCCY 1 cut(s) 801
EcoRII CCWGG 1 cut(s) 307
EcoT14I CCWWGG 2 cut(s) 124, 198
EcoT38I GRGCYC 1 cut(s) 805
ErhI CCWWGG 2 cut(s) 124, 198
FaeI CATG 1 cut(s) 128
FaqI GGGAC 1 cut(s) 837
FatI CATG 1 cut(s) 124
FauNDI CATATG 1 cut(s) 522
FblI GTMKAC 1 cut(s) 1098
Fnu4HI GCNGC 6 cut(s) 70, 186, 505, 794, 900, 1262
FokI GGATG 1 cut(s) 1028
FriOI GRGCYC 1 cut(s) 805
Fsp4HI GCNGC 6 cut(s) 70, 186, 505, 794, 900, 1262
FspBI CTAG 2 cut(s) 354, 1273
GlaI GCGC 2 cut(s) 573, 723
GluI GCNGC 6 cut(s) 70, 186, 505, 794, 900, 1262
GsaI CCCAGC 3 cut(s) 192, 235, 1088
GsuI CTGGAG 2 cut(s) 407, 515
HaeII RGCGCY 1 cut(s) 575
HaeIII GGCC 3 cut(s) 84, 197, 803
HapII CCGG 1 cut(s) 263
HhaI GCGC 2 cut(s) 574, 724
Hin1II CATG 1 cut(s) 128
Hin6I GCGC 2 cut(s) 572, 722
HinP1I GCGC 2 cut(s) 572, 722
HindIII AAGCTT 2 cut(s) 20, 605
HinfI GANTC 3 cut(s) 466, 539, 983
HpaII CCGG 1 cut(s) 263
HphI GGTGA 6 cut(s) 83, 124, 297, 881, 1100, 1120
Hpy166II GTNNAC 1 cut(s) 1099
Hpy188I TCNGA 6 cut(s) 471, 544, 567, 616, 745, 1230
Hpy188III TCNNGA 2 cut(s) 26, 875
Hpy8I GTNNAC 1 cut(s) 1099
HpyAV CCTTC 9 cut(s) 64, 145, 282, 294, 309, 364, 712, 877, 1189
HpyCH4V TGCA 4 cut(s) 507, 796, 899, 920
HpyF10VI GCNNNNNNNGC 2 cut(s) 194, 653
HpyF3I CTNAG 5 cut(s) 106, 162, 267, 613, 1080
Hsp92II CATG 1 cut(s) 128
HspAI GCGC 2 cut(s) 572, 722
Kzo9I GATC 2 cut(s) 736, 871
LmnI GCTCC 7 cut(s) 298, 388, 496, 511, 645, 727, 777
Lsp1109I GCAGC 5 cut(s) 81, 172, 491, 780, 911
LweI GCATC 1 cut(s) 442
MabI ACCWGGT 1 cut(s) 307
MaeI CTAG 2 cut(s) 354, 1273
MaeIII GTNAC 2 cut(s) 1088, 1108
MalI GATC 2 cut(s) 738, 873
MboI GATC 2 cut(s) 736, 871
MhlI GDGCHC 4 cut(s) 120, 501, 805, 959
MmeI TCCRAC 1 cut(s) 29
MseI TTAA 7 cut(s) 690, 710, 815, 1121, 1182, 1206, 1248
MslI CAYNNNNRTG 1 cut(s) 525
MspCI CTTAAG 1 cut(s) 1247
MspI CCGG 1 cut(s) 263
MspR9I CCNGG 2 cut(s) 263, 309
MvaI CCWGG 1 cut(s) 309
MwoI GCNNNNNNNGC 2 cut(s) 194, 653
NciI CCSGG 1 cut(s) 263
NcoI CCATGG 1 cut(s) 124
NdeI CATATG 1 cut(s) 522
NdeII GATC 2 cut(s) 736, 871
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 3 cut(s) 802, 803, 995
NmeAIII GCCGAG 1 cut(s) 199
NmuCI GTSAC 2 cut(s) 1088, 1108
PfeI GAWTC 3 cut(s) 466, 539, 983
PflMI CCANNNNNTGG 1 cut(s) 48
PkrI GCNGC 6 cut(s) 71, 187, 506, 795, 901, 1263
Psp6I CCWGG 1 cut(s) 307
PspFI CCCAGC 3 cut(s) 188, 231, 1084
PspGI CCWGG 1 cut(s) 307
PspN4I GGNNCC 3 cut(s) 802, 803, 995
PspOMI GGGCCC 1 cut(s) 801
PspPI GGNCC 4 cut(s) 51, 83, 801, 802
PstI CTGCAG 1 cut(s) 798
PstNI CAGNNNCTG 1 cut(s) 113
RsaI GTAC 2 cut(s) 65, 916
RsaNI GTAC 2 cut(s) 64, 915
RseI CAYNNNNRTG 1 cut(s) 525
SaqAI TTAA 7 cut(s) 690, 710, 815, 1121, 1182, 1206, 1248
SatI GCNGC 6 cut(s) 70, 186, 505, 794, 900, 1262
Sau3AI GATC 2 cut(s) 736, 871
Sau96I GGNCC 4 cut(s) 51, 83, 801, 802
ScrFI CCNGG 2 cut(s) 263, 309
SduI GDGCHC 4 cut(s) 120, 501, 805, 959
SexAI ACCWGGT 1 cut(s) 307
SfaNI GCATC 1 cut(s) 442
SfcI CTRYAG 1 cut(s) 794
SinI GGWCC 1 cut(s) 51
SmiMI CAYNNNNRTG 1 cut(s) 525
SmlI CTYRAG 1 cut(s) 1247
SmoI CTYRAG 1 cut(s) 1247
SsiI CCGC 1 cut(s) 1261
SspMI CTAG 2 cut(s) 354, 1273
StyD4I CCNGG 2 cut(s) 261, 307
StyI CCWWGG 2 cut(s) 124, 198
TaqI TCGA 1 cut(s) 210
TatI WGTACW 2 cut(s) 63, 914
TauI GCSGC 1 cut(s) 1264
TfiI GAWTC 3 cut(s) 466, 539, 983
Tru1I TTAA 7 cut(s) 690, 710, 815, 1121, 1182, 1206, 1248
Tru9I TTAA 7 cut(s) 690, 710, 815, 1121, 1182, 1206, 1248
TscAI CASTG 4 cut(s) 506, 765, 951, 1153
TseFI GTSAC 2 cut(s) 1088, 1108
TseI GCWGC 5 cut(s) 69, 185, 504, 793, 899
Tsp45I GTSAC 2 cut(s) 1088, 1108
TspDTI ATGAA 7 cut(s) 17, 228, 291, 494, 539, 1062, 1149
TspGWI ACGGA 1 cut(s) 1049
TspRI CASTG 4 cut(s) 506, 765, 951, 1153
Van91I CCANNNNNTGG 1 cut(s) 48
Vha464I CTTAAG 1 cut(s) 1247
VpaK11BI GGWCC 1 cut(s) 51
XapI RAATTY 3 cut(s) 746, 1069, 1177
XmiI GTMKAC 1 cut(s) 1098
XspI CTAG 2 cut(s) 354, 1273
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.