Rroxscaffold_1G00036100

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000340
Physical Location & Seq
Reverse (-)
52748832 .. 52752378
3547 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00036100.1

Sequence Viewer

Length: 954 bp
ATGGGAATGATCGGGGGAGGAGGAGATCACGAAAATGGGGAGGATCGGCCCATGCAACGCCGGAAAAGTGATTTTCCGTCCGGGTCGGGTCGTACGGAGGCGGGGTGGCTTCGATCTATGCTTGGAGGCAGCGGCGGGGCAAGGTGGCACTGGGGGAGCTTGGGCGGGGCGGGCAAAACCGGGTCGTGGCGGGGGATGCGGAAGAGGGAGAAAAAACCGGGTCGGGTCGAGCTCGACCCGCCGGGTCCGAAGAATGAGACAACTAGCACAGAGGGAAAGATGGACACTTGTGAACTGGAGCTAACGTTGGCAGAAGAGAGAAAGCTATGGCAGAGAGAAAAGCATCAGCTTCAACTAAAGAACATTGAATTGGAGAATCAAATTGATATGAAAAAGAATGAGCTGGAGCACTGCCGCAAGGAGATACAGCATATGAATGAGAGAGCAGAATCAGAGCAGAAGAAAGCAGAAAATCTGATAGCGCTGGCAGAAAAGAGAAAGGGACTGAAAAATCATTCAAAAATCTATATTGGCGTGAAGACATTGGGTGATCTTGACTTGAAGGCATTTCAAGTTGCAGCCAAGAGAAGATATACTGCATTAGAAGAAACAAATGAGAGGGCAGTGGAGTTGTGCTCTATGTGGGAGGATTATGTTGGGGATTCTAATTGGAACCCAAACAAGGTTATTATGGATGAGACAGGAAAAAGAATGGAAATTATTGATGAAGAAGATAAAAAGTTGAAAAATTTGAAGACTGAGCTGGGGGATGAAGTATACAAGGTGGTGACAACTTCGTTAATGGAATTGAATGAACATAATTCCACTGGGAGGTATAAGATACAAGAGCTTTGGAATTTTAAAGCAGGGAGGAAGGCAACACTTAAAGGGGGAGTTGCTTACATTCTGAAGCAATGGAACGCTCTTAAGAACACGAAGCGGCGAAGAAACTAG
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

317

Amino Acids

36.31

Weight (kDa)

9.3

Isoelectric Point (pI)

39.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XH PF03469 180 - 311 2.5e-47 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
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)
AccI GTMKAC 1 cut(s) 777
AclI AACGTT 1 cut(s) 305
AclWI GGATC 1 cut(s) 51
AcsI RAATTY 2 cut(s) 748, 856
AcuI CTGAAG 1 cut(s) 929
AfaI GTAC 1 cut(s) 94
AfeI AGCGCT 1 cut(s) 483
AfiI CCNNNNNNNGG 3 cut(s) 186, 682, 831
AflII CTTAAG 1 cut(s) 926
AgsI TTSAA 8 cut(s) 353, 368, 519, 562, 572, 745, 754, 811
AjuI GAANNNNNNNTTGG 2 cut(s) 353, 385
AluBI AGCT 8 cut(s) 159, 232, 301, 325, 349, 403, 763, 850
AluI AGCT 8 cut(s) 159, 232, 301, 325, 349, 403, 763, 850
Alw21I GWGCWC 3 cut(s) 234, 411, 638
Alw26I GTCTC 2 cut(s) 251, 692
AlwI GGATC 1 cut(s) 51
Aor51HI AGCGCT 1 cut(s) 483
AoxI GGCC 1 cut(s) 47
ApeKI GCWGC 2 cut(s) 129, 578
ApoI RAATTY 2 cut(s) 748, 856
AspLEI GCGC 1 cut(s) 484
AspS9I GGNCC 2 cut(s) 48, 245
AsuC2I CCSGG 4 cut(s) 82, 181, 219, 243
AsuHPI GGTGA 2 cut(s) 560, 799
AvaII GGWCC 1 cut(s) 245
BanII GRGCYC 1 cut(s) 234
BbsI GAAGAC 2 cut(s) 545, 761
Bbv12I GWGCWC 3 cut(s) 234, 411, 638
BbvI GCAGC 2 cut(s) 141, 590
BccI CCATC 1 cut(s) 274
BcnI CCSGG 4 cut(s) 82, 181, 219, 243
BcoDI GTCTC 2 cut(s) 251, 692
BfaI CTAG 2 cut(s) 264, 952
BfoI RGCGCY 1 cut(s) 485
BfrI CTTAAG 1 cut(s) 926
BisI GCNGC 5 cut(s) 130, 133, 415, 579, 941
BlsI GCNGC 5 cut(s) 131, 134, 416, 580, 942
Bme1390I CCNGG 4 cut(s) 82, 181, 219, 243
Bme18I GGWCC 1 cut(s) 245
BmgT120I GGNCC 2 cut(s) 48, 245
BmiI GGNNCC 2 cut(s) 246, 674
BmrFI CCNGG 4 cut(s) 82, 181, 219, 243
BmrI ACTGGG 2 cut(s) 160, 837
BmsI GCATC 2 cut(s) 186, 352
BmuI ACTGGG 2 cut(s) 160, 837
BpiI GAAGAC 2 cut(s) 545, 761
BplI GAGNNNNNCTC 2 cut(s) 620, 652
BpmI CTGGAG 2 cut(s) 317, 425
BpuMI CCSGG 4 cut(s) 82, 181, 219, 243
BsaXI ACNNNNNCTCC 4 cut(s) 89, 119, 290, 320
Bsc4I CCNNNNNNNGG 3 cut(s) 186, 682, 831
Bse1I ACTGG 3 cut(s) 155, 300, 832
Bse3DI GCAATG 1 cut(s) 920
BseGI GGATG 3 cut(s) 201, 700, 775
BseLI CCNNNNNNNGG 3 cut(s) 186, 682, 831
BseMI GCAATG 1 cut(s) 920
BseMII CTCAG 1 cut(s) 750
BseNI ACTGG 3 cut(s) 155, 300, 832
BseRI GAGGAG 2 cut(s) 33, 36
BseXI GCAGC 2 cut(s) 141, 590
BseYI CCCAGC 1 cut(s) 763
BshFI GGCC 1 cut(s) 49
BsiHKAI GWGCWC 3 cut(s) 234, 411, 638
BsiSI CCGG 5 cut(s) 61, 81, 180, 218, 242
BsiWI CGTACG 1 cut(s) 92
BslFI GGGAC 1 cut(s) 516
BslI CCNNNNNNNGG 3 cut(s) 186, 682, 831
BsmAI GTCTC 2 cut(s) 251, 692
BsmFI GGGAC 1 cut(s) 516
BsnI GGCC 1 cut(s) 49
Bsp1286I GDGCHC 3 cut(s) 234, 411, 638
Bsp143I GATC 5 cut(s) 9, 25, 43, 113, 550
BspANI GGCC 1 cut(s) 49
BspCNI CTCAG 1 cut(s) 751
BspLI GGNNCC 2 cut(s) 246, 674
BspPI GGATC 1 cut(s) 51
BspTI CTTAAG 1 cut(s) 926
BsrDI GCAATG 1 cut(s) 920
BsrI ACTGG 3 cut(s) 155, 300, 832
BssMI GATC 5 cut(s) 9, 25, 43, 113, 550
BssNAI GTATAC 1 cut(s) 778
Bst1107I GTATAC 1 cut(s) 778
Bst6I CTCTTC 2 cut(s) 197, 309
BstAFI CTTAAG 1 cut(s) 926
BstC8I GCNNGC 2 cut(s) 172, 486
BstDEI CTNAG 1 cut(s) 759
BstF5I GGATG 3 cut(s) 201, 700, 775
BstH2I RGCGCY 1 cut(s) 485
BstHHI GCGC 1 cut(s) 484
BstKTI GATC 5 cut(s) 12, 28, 46, 116, 553
BstMAI GTCTC 2 cut(s) 251, 692
BstMBI GATC 5 cut(s) 9, 25, 43, 113, 550
BstMWI GCNNNNNNNGC 3 cut(s) 171, 196, 238
BstSCI CCNGG 4 cut(s) 80, 179, 217, 241
BstV1I GCAGC 2 cut(s) 141, 590
BstV2I GAAGAC 2 cut(s) 545, 761
BstZ17I GTATAC 1 cut(s) 778
BsuRI GGCC 1 cut(s) 49
BtsCI GGATG 3 cut(s) 201, 700, 775
BtsI GCAGTG 2 cut(s) 409, 630
BtsIMutI CAGTG 4 cut(s) 148, 409, 630, 825
Cac8I GCNNGC 2 cut(s) 172, 486
CfoI GCGC 1 cut(s) 484
Cfr13I GGNCC 2 cut(s) 48, 245
Csp6I GTAC 1 cut(s) 93
CviAII CATG 1 cut(s) 52
CviQI GTAC 1 cut(s) 93
DdeI CTNAG 1 cut(s) 759
DpnI GATC 5 cut(s) 11, 27, 45, 115, 552
DpnII GATC 5 cut(s) 9, 25, 43, 113, 550
DraI TTTAAA 1 cut(s) 862
Eam1104I CTCTTC 2 cut(s) 197, 309
EarI CTCTTC 2 cut(s) 197, 309
Ecl136II GAGCTC 1 cut(s) 232
Eco24I GRGCYC 1 cut(s) 234
Eco47I GGWCC 1 cut(s) 245
Eco47III AGCGCT 1 cut(s) 483
Eco53kI GAGCTC 1 cut(s) 232
Eco57I CTGAAG 1 cut(s) 929
EcoICRI GAGCTC 1 cut(s) 232
EcoT38I GRGCYC 1 cut(s) 234
FaeI CATG 1 cut(s) 55
FaqI GGGAC 1 cut(s) 516
FatI CATG 1 cut(s) 51
FauI CCCGC 6 cut(s) 94, 128, 158, 163, 183, 246
FauNDI CATATG 1 cut(s) 432
FblI GTMKAC 1 cut(s) 777
Fnu4HI GCNGC 5 cut(s) 130, 133, 415, 579, 941
FokI GGATG 3 cut(s) 208, 707, 782
FriOI GRGCYC 1 cut(s) 234
Fsp4HI GCNGC 5 cut(s) 130, 133, 415, 579, 941
FspBI CTAG 2 cut(s) 264, 952
GlaI GCGC 1 cut(s) 483
GluI GCNGC 5 cut(s) 130, 133, 415, 579, 941
GsaI CCCAGC 1 cut(s) 767
GsuI CTGGAG 2 cut(s) 317, 425
HaeII RGCGCY 1 cut(s) 485
HaeIII GGCC 1 cut(s) 49
HapII CCGG 5 cut(s) 61, 81, 180, 218, 242
HhaI GCGC 1 cut(s) 484
Hin1II CATG 1 cut(s) 55
Hin6I GCGC 1 cut(s) 482
HinP1I GCGC 1 cut(s) 482
HinfI GANTC 3 cut(s) 376, 449, 662
HpaII CCGG 5 cut(s) 61, 81, 180, 218, 242
HphI GGTGA 2 cut(s) 560, 799
Hpy166II GTNNAC 2 cut(s) 293, 778
Hpy188I TCNGA 4 cut(s) 249, 454, 477, 909
Hpy188III TCNNGA 2 cut(s) 29, 554
Hpy8I GTNNAC 2 cut(s) 293, 778
HpyAV CCTTC 2 cut(s) 556, 868
HpyCH4IV ACGT 1 cut(s) 305
HpyCH4V TGCA 3 cut(s) 55, 578, 599
HpyF10VI GCNNNNNNNGC 3 cut(s) 171, 196, 238
HpyF3I CTNAG 1 cut(s) 759
HpySE526I ACGT 1 cut(s) 305
Hsp92II CATG 1 cut(s) 55
HspAI GCGC 1 cut(s) 482
Kzo9I GATC 5 cut(s) 9, 25, 43, 113, 550
LmnI GCTCC 3 cut(s) 156, 298, 406
Lsp1109I GCAGC 2 cut(s) 141, 590
LweI GCATC 2 cut(s) 186, 352
MaeI CTAG 2 cut(s) 264, 952
MaeII ACGT 1 cut(s) 305
MaeIII GTNAC 1 cut(s) 787
MalI GATC 5 cut(s) 11, 27, 45, 115, 552
MboI GATC 5 cut(s) 9, 25, 43, 113, 550
MhlI GDGCHC 3 cut(s) 234, 411, 638
MluCI AATT 8 cut(s) 368, 381, 667, 717, 748, 806, 820, 856
MseI TTAA 4 cut(s) 800, 861, 885, 927
MslI CAYNNNNRTG 2 cut(s) 33, 435
MspA1I CMGCKG 1 cut(s) 132
MspCI CTTAAG 1 cut(s) 926
MspI CCGG 5 cut(s) 61, 81, 180, 218, 242
MspR9I CCNGG 4 cut(s) 82, 181, 219, 243
MwoI GCNNNNNNNGC 3 cut(s) 171, 196, 238
NciI CCSGG 4 cut(s) 82, 181, 219, 243
NdeI CATATG 1 cut(s) 432
NdeII GATC 5 cut(s) 9, 25, 43, 113, 550
NlaIII CATG 1 cut(s) 55
NlaIV GGNNCC 2 cut(s) 246, 674
NmuCI GTSAC 1 cut(s) 787
PfeI GAWTC 3 cut(s) 376, 449, 662
Pfl23II CGTACG 1 cut(s) 92
PkrI GCNGC 5 cut(s) 131, 134, 416, 580, 942
Psp124BI GAGCTC 1 cut(s) 234
Psp1406I AACGTT 1 cut(s) 305
PspFI CCCAGC 1 cut(s) 763
PspLI CGTACG 1 cut(s) 92
PspN4I GGNNCC 2 cut(s) 246, 674
PspPI GGNCC 2 cut(s) 48, 245
RsaI GTAC 1 cut(s) 94
RsaNI GTAC 1 cut(s) 93
RseI CAYNNNNRTG 2 cut(s) 33, 435
SacI GAGCTC 1 cut(s) 234
SaqAI TTAA 4 cut(s) 800, 861, 885, 927
SatI GCNGC 5 cut(s) 130, 133, 415, 579, 941
Sau3AI GATC 5 cut(s) 9, 25, 43, 113, 550
Sau96I GGNCC 2 cut(s) 48, 245
ScrFI CCNGG 4 cut(s) 82, 181, 219, 243
SduI GDGCHC 3 cut(s) 234, 411, 638
SfaNI GCATC 2 cut(s) 186, 352
SinI GGWCC 1 cut(s) 245
SmiMI CAYNNNNRTG 2 cut(s) 33, 435
SmlI CTYRAG 1 cut(s) 926
SmoI CTYRAG 1 cut(s) 926
Sse9I AATT 8 cut(s) 368, 381, 667, 717, 748, 806, 820, 856
SspMI CTAG 2 cut(s) 264, 952
SstI GAGCTC 1 cut(s) 234
StyD4I CCNGG 4 cut(s) 80, 179, 217, 241
TaiI ACGT 1 cut(s) 308
TaqI TCGA 3 cut(s) 112, 228, 234
TasI AATT 8 cut(s) 368, 381, 667, 717, 748, 806, 820, 856
TauI GCSGC 3 cut(s) 135, 417, 943
TfiI GAWTC 3 cut(s) 376, 449, 662
Tru1I TTAA 4 cut(s) 800, 861, 885, 927
Tru9I TTAA 4 cut(s) 800, 861, 885, 927
TscAI CASTG 4 cut(s) 155, 416, 630, 832
TseFI GTSAC 1 cut(s) 787
TseI GCWGC 2 cut(s) 129, 578
Tsp45I GTSAC 1 cut(s) 787
TspDTI ATGAA 5 cut(s) 404, 449, 741, 786, 828
TspGWI ACGGA 2 cut(s) 66, 110
TspRI CASTG 4 cut(s) 155, 416, 630, 832
Vha464I CTTAAG 1 cut(s) 926
VpaK11BI GGWCC 1 cut(s) 245
XapI RAATTY 2 cut(s) 748, 856
XmiI GTMKAC 1 cut(s) 777
XspI CTAG 2 cut(s) 264, 952
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.