Rroxscaffold_2G00154970

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000340
Physical Location & Seq
Forward (+)
91400325 .. 91406820
6496 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00154970.1

Sequence Viewer

Length: 1224 bp
ATGTCCATGAGCAACAAGACCATGCTGCAGGAGCTTTGCGTCAAAAGGGGTTGGGCTGCACCCAAATATAGTAGCACCAAGCAAGGTCCAGATCACGTTCCTCAGTTCTCTGCCACCGTCGTCGTCAACGGTGTCAGCTTCGCCTCTCAGGGCTTCCTCAGCTCCAAGAAGGAAGCTGAGGCCTTTGCCGCCGGAATCGCATTGGAAAAGTATCTTGGCCCCCAAACCCAACTGCCCATTACCCCAAAGTTCAATTCTTTCTCATCCCCAGTGAAAGTAGCTCATGTTGTTCCACAATACAACAATCTGGTAAGAGTTGAGGAGAATCAGGCATGGAATGAGACTAATGCCATACAGGAAAAGAAGGGTGCTGATGAACAGGAGCAGTTGTTGGCTAAAGAACGAAAGCTGTGGCACATAGAGAAGCTTCAGCTCGAGATGAAAAACCTTGAATTAGTGAATGCGATTGAAGTGAAGAATAATGAGGTTCAGCGGTTTGAGAAGAAGCTGGAACATATGAAAGAGATGGCAGCAATGGAGCAGAAGAAAACCAAAAGCATGATATCATTGGCAGAAGAGAAAAAGAGAGAAAATGAGAAACTTCATACGAAAGTTGCTGAGTTGGAAAAGCAACTCCAGGCCAAACATGCAGTGGATGGGGATATGGAAGTGAAAAAGATCAACAGTCTCTCTGACTTTTCCAATGCACTTGTTGTAAAGGAGCAGAGCTATAATGATGAACTTCAGGAGTCTCGTAAGTTGTTGATCAATGCATTACGTGATGGTTCAAAAGTCTCTATTGGGGTGAAGAGATTGGGAGGTCTCGACTGGAAAGCATTTCAAGTTGCAGCCAAAAGAGAATATTTTGTAGAAGAGGAGGTAAATGAGAGGGCAGCGGAGTTATGCTCTAAGTGGGAGAATCACATTGGAGATCCTGATTGGAATCCATTCAAGACTATCACGGATATGAGAGGAAGGAACAAGGAAATTGTTGACGAGGAAGATGAAAAGTTAAAGAATTTAAAGGAGGAATTGGGTGATGAAGCGTACGAGGTGGTGATAACTGCATTATTAGAAATGAGAGAGTATAATCCCTGTGGTAGATATAAAGTAGAAGAGCTATGGAATTTCCAACTAGGTAGGAAGGCATCATTGATAGAGGGAGTCCAATATCTTCTGAAACAACTTGATTTGGTTAACACTAAGAAGCGGCAAAGAACCTGA
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

407

Amino Acids

46.73

Weight (kDa)

6.72

Isoelectric Point (pI)

40.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DND1_DSRM PF14709 5 - 60 9.4e-07 double strand RNA binding domain from DEAD END PROTEIN 1
dsrm PF00035 6 - 70 4.3e-12 Double-stranded RNA binding motif
XH PF03469 270 - 399 3.5e-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)
AciI CCGC 4 cut(s) 189, 493, 896, 1210
AclWI GGATC 1 cut(s) 926
AcsI RAATTY 2 cut(s) 1018, 1126
AcuI CTGAAG 2 cut(s) 413, 728
AfaI GTAC 1 cut(s) 1049
AgsI TTSAA 6 cut(s) 253, 452, 470, 789, 842, 952
AjnI CCWGG 1 cut(s) 636
AjuI GAANNNNNNNTTGG 4 cut(s) 198, 230, 238, 270
Alw26I GTCTC 5 cut(s) 335, 692, 756, 799, 827
AlwI GGATC 1 cut(s) 926
Ama87I CYCGRG 1 cut(s) 434
AoxI GGCC 3 cut(s) 180, 217, 639
ApeKI GCWGC 5 cut(s) 25, 56, 530, 848, 893
ApoI RAATTY 2 cut(s) 1018, 1126
Asp700I GAANNNNTTC 1 cut(s) 947
AspS9I GGNCC 2 cut(s) 86, 218
AsuHPI GGTGA 3 cut(s) 817, 1049, 1069
AvaI CYCGRG 1 cut(s) 434
AvaII GGWCC 1 cut(s) 86
BbvCI CCTCAGC 2 cut(s) 158, 177
BbvI GCAGC 5 cut(s) 12, 43, 542, 860, 905
BccI CCATC 3 cut(s) 520, 650, 776
BciT130I CCWGG 1 cut(s) 638
BclI TGATCA 1 cut(s) 765
BcoDI GTCTC 5 cut(s) 335, 692, 756, 799, 827
BfaI CTAG 1 cut(s) 1136
BfmI CTRYAG 1 cut(s) 26
BisI GCNGC 7 cut(s) 26, 57, 189, 531, 849, 894, 1211
BlsI GCNGC 7 cut(s) 27, 58, 190, 532, 850, 895, 1212
Bme1390I CCNGG 1 cut(s) 638
Bme18I GGWCC 1 cut(s) 86
BmeT110I CYCGRG 1 cut(s) 434
BmgT120I GGNCC 2 cut(s) 86, 218
BmiI GGNNCC 1 cut(s) 220
BmrFI CCNGG 1 cut(s) 638
BmrI ACTGGG 1 cut(s) 263
BmsI GCATC 1 cut(s) 1157
BmuI ACTGGG 1 cut(s) 263
BplI GAGNNNNNCTC 2 cut(s) 890, 922
BpmI CTGGAG 1 cut(s) 620
Bpu10I CCTNAGC 2 cut(s) 158, 177
BsaAI YACGTR 1 cut(s) 779
BsaBI GATNNNNATC 1 cut(s) 942
BsaI GGTCTC 1 cut(s) 827
BsaXI ACNNNNNCTCC 2 cut(s) 374, 404
Bse1I ACTGG 2 cut(s) 269, 833
Bse3DI GCAATG 1 cut(s) 540
Bse8I GATNNNNATC 1 cut(s) 942
BseBI CCWGG 1 cut(s) 638
BseGI GGATG 2 cut(s) 263, 661
BseJI GATNNNNATC 1 cut(s) 942
BseMI GCAATG 1 cut(s) 540
BseMII CTCAG 5 cut(s) 116, 161, 168, 172, 609
BseNI ACTGG 2 cut(s) 269, 833
BseRI GAGGAG 2 cut(s) 335, 890
BseXI GCAGC 5 cut(s) 12, 43, 542, 860, 905
BsgI GTGCAG 1 cut(s) 42
BshFI GGCC 3 cut(s) 182, 219, 641
BsiHKCI CYCGRG 1 cut(s) 434
BsiSI CCGG 1 cut(s) 192
BsiWI CGTACG 1 cut(s) 1047
BsmAI GTCTC 5 cut(s) 335, 692, 756, 799, 827
BsmI GAATGC 1 cut(s) 466
BsnI GGCC 3 cut(s) 182, 219, 641
Bso31I GGTCTC 1 cut(s) 827
BsoBI CYCGRG 1 cut(s) 434
Bsp143I GATC 4 cut(s) 91, 678, 765, 931
BspACI CCGC 4 cut(s) 189, 493, 896, 1210
BspANI GGCC 3 cut(s) 182, 219, 641
BspCNI CTCAG 5 cut(s) 115, 160, 169, 171, 610
BspLI GGNNCC 1 cut(s) 220
BspMAI CTGCAG 1 cut(s) 30
BspPI GGATC 1 cut(s) 926
BspQI GCTCTTC 1 cut(s) 1110
BspTNI GGTCTC 1 cut(s) 827
BsrDI GCAATG 1 cut(s) 540
BsrI ACTGG 2 cut(s) 269, 833
BssMI GATC 4 cut(s) 91, 678, 765, 931
Bst2UI CCWGG 1 cut(s) 638
Bst4CI ACNGT 3 cut(s) 118, 131, 686
Bst6I CTCTTC 4 cut(s) 570, 803, 867, 1110
BstBAI YACGTR 1 cut(s) 779
BstDEI CTNAG 7 cut(s) 102, 147, 158, 177, 618, 909, 1203
BstF5I GGATG 2 cut(s) 263, 661
BstKTI GATC 4 cut(s) 94, 681, 768, 934
BstMAI GTCTC 5 cut(s) 335, 692, 756, 799, 827
BstMBI GATC 4 cut(s) 91, 678, 765, 931
BstMWI GCNNNNNNNGC 5 cut(s) 31, 159, 188, 197, 647
BstNI CCWGG 1 cut(s) 638
BstNSI RCATGY 1 cut(s) 650
BstSCI CCNGG 1 cut(s) 636
BstSFI CTRYAG 1 cut(s) 26
BstV1I GCAGC 5 cut(s) 12, 43, 542, 860, 905
BstX2I RGATCY 1 cut(s) 931
BstYI RGATCY 1 cut(s) 931
BsuRI GGCC 3 cut(s) 182, 219, 641
BtsCI GGATG 2 cut(s) 263, 661
BtsI GCAGTG 1 cut(s) 657
BtsIMutI CAGTG 2 cut(s) 276, 657
Cfr13I GGNCC 2 cut(s) 86, 218
CseI GACGC 1 cut(s) 28
Csp6I GTAC 1 cut(s) 1048
CviAII CATG 6 cut(s) 7, 22, 284, 333, 559, 647
CviQI GTAC 1 cut(s) 1048
DdeI CTNAG 7 cut(s) 102, 147, 158, 177, 618, 909, 1203
DpnI GATC 4 cut(s) 93, 680, 767, 933
DpnII GATC 4 cut(s) 91, 678, 765, 931
DraI TTTAAA 1 cut(s) 1023
Eam1104I CTCTTC 4 cut(s) 570, 803, 867, 1110
EarI CTCTTC 4 cut(s) 570, 803, 867, 1110
Eco147I AGGCCT 1 cut(s) 182
Eco31I GGTCTC 1 cut(s) 827
Eco32I GATATC 1 cut(s) 564
Eco47I GGWCC 1 cut(s) 86
Eco57I CTGAAG 2 cut(s) 413, 728
Eco88I CYCGRG 1 cut(s) 434
EcoRII CCWGG 1 cut(s) 636
EcoRV GATATC 1 cut(s) 564
EcoT22I ATGCAT 1 cut(s) 775
FaeI CATG 6 cut(s) 10, 25, 287, 336, 562, 650
FatI CATG 6 cut(s) 6, 21, 283, 332, 558, 646
FauNDI CATATG 1 cut(s) 516
FbaI TGATCA 1 cut(s) 765
Fnu4HI GCNGC 7 cut(s) 26, 57, 189, 531, 849, 894, 1211
FokI GGATG 2 cut(s) 250, 668
Fsp4HI GCNGC 7 cut(s) 26, 57, 189, 531, 849, 894, 1211
FspBI CTAG 1 cut(s) 1136
GluI GCNGC 7 cut(s) 26, 57, 189, 531, 849, 894, 1211
GsuI CTGGAG 1 cut(s) 620
HaeIII GGCC 3 cut(s) 182, 219, 641
HapII CCGG 1 cut(s) 192
HgaI GACGC 1 cut(s) 28
Hin1II CATG 6 cut(s) 10, 25, 287, 336, 562, 650
HincII GTYRAC 3 cut(s) 127, 994, 1198
HindII GTYRAC 3 cut(s) 127, 994, 1198
HindIII AAGCTT 1 cut(s) 425
HinfI GANTC 6 cut(s) 195, 325, 749, 919, 943, 1164
HpaI GTTAAC 1 cut(s) 1198
HpaII CCGG 1 cut(s) 192
HphI GGTGA 3 cut(s) 817, 1049, 1069
Hpy166II GTNNAC 3 cut(s) 127, 994, 1198
Hpy188I TCNGA 2 cut(s) 694, 1179
Hpy188III TCNNGA 6 cut(s) 89, 436, 746, 824, 935, 952
Hpy8I GTNNAC 3 cut(s) 127, 994, 1198
Hpy99I CGWCG 2 cut(s) 122, 125
HpyAV CCTTC 4 cut(s) 163, 358, 969, 1138
HpyCH4III ACNGT 3 cut(s) 118, 131, 686
HpyCH4IV ACGT 2 cut(s) 96, 778
HpyCH4V TGCA 7 cut(s) 28, 59, 650, 707, 773, 848, 1067
HpyF10VI GCNNNNNNNGC 5 cut(s) 31, 159, 188, 197, 647
HpyF3I CTNAG 7 cut(s) 102, 147, 158, 177, 618, 909, 1203
HpySE526I ACGT 2 cut(s) 96, 778
Hsp92II CATG 6 cut(s) 10, 25, 287, 336, 562, 650
Ksp22I TGATCA 1 cut(s) 765
KspAI GTTAAC 1 cut(s) 1198
Kzo9I GATC 4 cut(s) 91, 678, 765, 931
LguI GCTCTTC 1 cut(s) 1110
LmnI GCTCC 5 cut(s) 31, 167, 382, 538, 721
Lsp1109I GCAGC 5 cut(s) 12, 43, 542, 860, 905
LweI GCATC 1 cut(s) 1157
MaeI CTAG 1 cut(s) 1136
MaeII ACGT 2 cut(s) 96, 778
MalI GATC 4 cut(s) 93, 680, 767, 933
MboI GATC 4 cut(s) 91, 678, 765, 931
MboII GAAGA 9 cut(s) 487, 514, 556, 587, 820, 884, 1013, 1127, 1166
MflI RGATCY 1 cut(s) 931
MluCI AATT 6 cut(s) 253, 452, 987, 1018, 1031, 1126
MlyI GAGTC 2 cut(s) 758, 1173
MmeI TCCRAC 2 cut(s) 603, 1156
Mph1103I ATGCAT 1 cut(s) 775
MroXI GAANNNNTTC 1 cut(s) 947
MseI TTAA 3 cut(s) 1013, 1022, 1197
MslI CAYNNNNRTG 1 cut(s) 965
MspA1I CMGCKG 2 cut(s) 493, 896
MspI CCGG 1 cut(s) 192
MspR9I CCNGG 1 cut(s) 638
Mva1269I GAATGC 1 cut(s) 466
MvaI CCWGG 1 cut(s) 638
MwoI GCNNNNNNNGC 5 cut(s) 31, 159, 188, 197, 647
NdeI CATATG 1 cut(s) 516
NdeII GATC 4 cut(s) 91, 678, 765, 931
NlaIII CATG 6 cut(s) 10, 25, 287, 336, 562, 650
NlaIV GGNNCC 1 cut(s) 220
NsiI ATGCAT 1 cut(s) 775
NspI RCATGY 1 cut(s) 650
PaeR7I CTCGAG 1 cut(s) 434
PceI AGGCCT 1 cut(s) 182
PciSI GCTCTTC 1 cut(s) 1110
PctI GAATGC 1 cut(s) 466
PdmI GAANNNNTTC 1 cut(s) 947
PfeI GAWTC 4 cut(s) 195, 325, 919, 943
Pfl23II CGTACG 1 cut(s) 1047
PkrI GCNGC 7 cut(s) 27, 58, 190, 532, 850, 895, 1212
PleI GAGTC 2 cut(s) 757, 1172
PpsI GAGTC 2 cut(s) 757, 1172
Ppu21I YACGTR 1 cut(s) 779
Psp6I CCWGG 1 cut(s) 636
PspGI CCWGG 1 cut(s) 636
PspLI CGTACG 1 cut(s) 1047
PspN4I GGNNCC 1 cut(s) 220
PspPI GGNCC 2 cut(s) 86, 218
PstI CTGCAG 1 cut(s) 30
PsuI RGATCY 1 cut(s) 931
RsaI GTAC 1 cut(s) 1049
RsaNI GTAC 1 cut(s) 1048
RseI CAYNNNNRTG 1 cut(s) 965
SapI GCTCTTC 1 cut(s) 1110
SaqAI TTAA 3 cut(s) 1013, 1022, 1197
SatI GCNGC 7 cut(s) 26, 57, 189, 531, 849, 894, 1211
Sau3AI GATC 4 cut(s) 91, 678, 765, 931
Sau96I GGNCC 2 cut(s) 86, 218
SchI GAGTC 2 cut(s) 758, 1173
ScrFI CCNGG 1 cut(s) 638
SfaNI GCATC 1 cut(s) 1157
SfcI CTRYAG 1 cut(s) 26
Sfr274I CTCGAG 1 cut(s) 434
SinI GGWCC 1 cut(s) 86
SlaI CTCGAG 1 cut(s) 434
SmiMI CAYNNNNRTG 1 cut(s) 965
SmlI CTYRAG 1 cut(s) 434
SmoI CTYRAG 1 cut(s) 434
Sse9I AATT 6 cut(s) 253, 452, 987, 1018, 1031, 1126
SseBI AGGCCT 1 cut(s) 182
SsiI CCGC 4 cut(s) 189, 493, 896, 1210
SspI AATATT 1 cut(s) 863
SspMI CTAG 1 cut(s) 1136
StuI AGGCCT 1 cut(s) 182
StyD4I CCNGG 1 cut(s) 636
TaaI ACNGT 3 cut(s) 118, 131, 686
TaiI ACGT 2 cut(s) 99, 781
TaqI TCGA 2 cut(s) 435, 825
TasI AATT 6 cut(s) 253, 452, 987, 1018, 1031, 1126
TauI GCSGC 2 cut(s) 191, 1213
TfiI GAWTC 4 cut(s) 195, 325, 919, 943
Tru1I TTAA 3 cut(s) 1013, 1022, 1197
Tru9I TTAA 3 cut(s) 1013, 1022, 1197
TscAI CASTG 2 cut(s) 276, 657
TseI GCWGC 5 cut(s) 25, 56, 530, 848, 893
TspDTI ATGAA 7 cut(s) 390, 455, 533, 593, 753, 1020, 1056
TspGWI ACGGA 1 cut(s) 977
TspRI CASTG 2 cut(s) 276, 657
VpaK11BI GGWCC 1 cut(s) 86
XapI RAATTY 2 cut(s) 1018, 1126
XceI RCATGY 1 cut(s) 650
XcmI CCANNNNNNNNNTGG 1 cut(s) 649
XhoI CTCGAG 1 cut(s) 434
XmnI GAANNNNTTC 1 cut(s) 947
XspI CTAG 1 cut(s) 1136
Zsp2I ATGCAT 1 cut(s) 775
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.