Rh5CG411400

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000340
Physical Location & Seq
Reverse (-)
55566204 .. 55567936
1733 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG411400.1

Sequence Viewer

Length: 693 bp
ATGAATATTAAAGCACTTGAACAAATGTTAAAGGAGAAGGAGAAGGAGCTTACTGATCTGTCAGAATTTTACAATGCACTGATTTTCAAGGAGAGGAGCAATAATGATGAGCTGCAGGGGGCCCGTAAAGAGTTAATTGATGGACTGAAAAATCATTCAAAAATCTATATTGGCATGAAGACATTGGGTGATCTTGACTTGAAGACATTTCAAGTTGCAGCCAAGAGAATATATACTGCAATAGAAGAAGCAAATGAGAGGGCAGTGGAGTTGTGCTCTGTGTGGGAGGATTATGTTGGGGATTCTAATTGGAACCCATACAAGGTTATTATGGATGAGACAGGAAAAAGAATGACTGAGCTGGGGGATGAAGTATACAAGGTGGTGACAACTTCGTTAATGGAATTGAATGAACATAATTCCAATGGGAGGTATAGGATACAAGATCTTTGGAATTTTAAAGCAGGGAGGAAGGCAACACTTAAAGAGGGAGTTGCTTACATTCTGAAGCAATGGAACGCGCTTAAAGAACACGAAGCGGAGAAGAAACTAAAAGTTAAAGGGCTTTCATCTGAAGAGTTTGCTGCTCATAATGAGTTGTTTGAAGGCTTGTTTACAAAAAAAAAAGAAGACAAAACTGGAAGAAACCAACGTCTTGTATTTTCTGGTGACTCAATTGGAAGGAACCAGTGA
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

230

Amino Acids

26.59

Weight (kDa)

6.48

Isoelectric Point (pI)

25.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XH PF03469 60 - 177 2.4e-35 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) 375
AccII CGCG 1 cut(s) 521
AciI CCGC 1 cut(s) 539
AcsI RAATTY 2 cut(s) 65, 454
AcuI CTGAAG 2 cut(s) 527, 594
AfiI CCNNNNNNNGG 2 cut(s) 322, 429
AgsI TTSAA 7 cut(s) 20, 88, 159, 202, 212, 409, 605
AluBI AGCT 3 cut(s) 49, 112, 361
AluI AGCT 3 cut(s) 49, 112, 361
Alw21I GWGCWC 1 cut(s) 278
Alw26I GTCTC 1 cut(s) 332
AoxI GGCC 1 cut(s) 120
ApaI GGGCCC 1 cut(s) 124
ApeKI GCWGC 3 cut(s) 112, 218, 584
ApoI RAATTY 2 cut(s) 65, 454
AspLEI GCGC 1 cut(s) 523
AspS9I GGNCC 2 cut(s) 120, 121
AsuHPI GGTGA 3 cut(s) 200, 397, 680
BaeGI GKGCMC 1 cut(s) 124
BanII GRGCYC 1 cut(s) 124
BbsI GAAGAC 3 cut(s) 185, 209, 636
Bbv12I GWGCWC 1 cut(s) 278
BbvI GCAGC 3 cut(s) 99, 230, 571
BccI CCATC 1 cut(s) 134
BciVI GTATCC 1 cut(s) 432
BcoDI GTCTC 1 cut(s) 332
BfmI CTRYAG 1 cut(s) 113
BfuI GTATCC 1 cut(s) 432
BglII AGATCT 1 cut(s) 445
BisI GCNGC 3 cut(s) 113, 219, 585
BlsI GCNGC 3 cut(s) 114, 220, 586
BmgT120I GGNCC 2 cut(s) 120, 121
BmiI GGNNCC 4 cut(s) 121, 122, 314, 686
BpiI GAAGAC 3 cut(s) 185, 209, 636
BplI GAGNNNNNCTC 2 cut(s) 260, 292
Bsc4I CCNNNNNNNGG 2 cut(s) 322, 429
Bse1I ACTGG 2 cut(s) 643, 688
Bse3DI GCAATG 1 cut(s) 518
BseGI GGATG 2 cut(s) 340, 373
BseLI CCNNNNNNNGG 2 cut(s) 322, 429
BseMI GCAATG 1 cut(s) 518
BseMII CTCAG 1 cut(s) 348
BseNI ACTGG 2 cut(s) 643, 688
BseRI GAGGAG 1 cut(s) 109
BseSI GKGCMC 1 cut(s) 124
BseXI GCAGC 3 cut(s) 99, 230, 571
BseYI CCCAGC 1 cut(s) 361
Bsh1236I CGCG 1 cut(s) 521
BshFI GGCC 1 cut(s) 122
BsiHKAI GWGCWC 1 cut(s) 278
BslI CCNNNNNNNGG 2 cut(s) 322, 429
BsmAI GTCTC 1 cut(s) 332
BsnI GGCC 1 cut(s) 122
Bsp120I GGGCCC 1 cut(s) 120
Bsp1286I GDGCHC 2 cut(s) 124, 278
Bsp143I GATC 3 cut(s) 55, 190, 445
BspACI CCGC 1 cut(s) 539
BspANI GGCC 1 cut(s) 122
BspCNI CTCAG 1 cut(s) 349
BspFNI CGCG 1 cut(s) 521
BspLI GGNNCC 4 cut(s) 121, 122, 314, 686
BspMAI CTGCAG 1 cut(s) 117
BsrDI GCAATG 1 cut(s) 518
BsrI ACTGG 2 cut(s) 643, 688
BssMI GATC 3 cut(s) 55, 190, 445
BssNAI GTATAC 1 cut(s) 376
Bst1107I GTATAC 1 cut(s) 376
Bst6I CTCTTC 1 cut(s) 570
BstDEI CTNAG 1 cut(s) 357
BstF5I GGATG 2 cut(s) 340, 373
BstFNI CGCG 1 cut(s) 521
BstHHI GCGC 1 cut(s) 523
BstKTI GATC 3 cut(s) 58, 193, 448
BstMAI GTCTC 1 cut(s) 332
BstMBI GATC 3 cut(s) 55, 190, 445
BstSFI CTRYAG 1 cut(s) 113
BstSLI GKGCMC 1 cut(s) 124
BstUI CGCG 1 cut(s) 521
BstV1I GCAGC 3 cut(s) 99, 230, 571
BstV2I GAAGAC 3 cut(s) 185, 209, 636
BstX2I RGATCY 1 cut(s) 445
BstYI RGATCY 1 cut(s) 445
BstZ17I GTATAC 1 cut(s) 376
BsuI GTATCC 1 cut(s) 432
BsuRI GGCC 1 cut(s) 122
BtsCI GGATG 2 cut(s) 340, 373
BtsI GCAGTG 1 cut(s) 270
BtsIMutI CAGTG 2 cut(s) 77, 270
CfoI GCGC 1 cut(s) 523
Cfr13I GGNCC 2 cut(s) 120, 121
CviAII CATG 1 cut(s) 175
CviJI RGCY 7 cut(s) 49, 112, 122, 221, 361, 565, 609
CviKI_1 RGCY 7 cut(s) 49, 112, 122, 221, 361, 565, 609
DdeI CTNAG 1 cut(s) 357
DpnI GATC 3 cut(s) 57, 192, 447
DpnII GATC 3 cut(s) 55, 190, 445
DraI TTTAAA 1 cut(s) 460
Eam1104I CTCTTC 1 cut(s) 570
EarI CTCTTC 1 cut(s) 570
Eco24I GRGCYC 1 cut(s) 124
Eco57I CTGAAG 2 cut(s) 527, 594
EcoO109I RGGNCCY 1 cut(s) 120
EcoT38I GRGCYC 1 cut(s) 124
FaeI CATG 1 cut(s) 178
FatI CATG 1 cut(s) 174
FblI GTMKAC 1 cut(s) 375
Fnu4HI GCNGC 3 cut(s) 113, 219, 585
FokI GGATG 2 cut(s) 347, 380
FriOI GRGCYC 1 cut(s) 124
Fsp4HI GCNGC 3 cut(s) 113, 219, 585
GlaI GCGC 1 cut(s) 522
GluI GCNGC 3 cut(s) 113, 219, 585
GsaI CCCAGC 1 cut(s) 365
HaeIII GGCC 1 cut(s) 122
HhaI GCGC 1 cut(s) 523
Hin1II CATG 1 cut(s) 178
Hin6I GCGC 1 cut(s) 521
HinP1I GCGC 1 cut(s) 521
HinfI GANTC 2 cut(s) 302, 671
HphI GGTGA 3 cut(s) 200, 397, 680
Hpy166II GTNNAC 2 cut(s) 376, 615
Hpy188I TCNGA 3 cut(s) 64, 507, 574
Hpy188III TCNNGA 1 cut(s) 194
Hpy8I GTNNAC 2 cut(s) 376, 615
HpyAV CCTTC 5 cut(s) 31, 37, 466, 599, 675
HpyCH4IV ACGT 1 cut(s) 652
HpyCH4V TGCA 4 cut(s) 77, 115, 218, 239
HpyF3I CTNAG 1 cut(s) 357
HpySE526I ACGT 1 cut(s) 652
Hsp92II CATG 1 cut(s) 178
HspAI GCGC 1 cut(s) 521
Kzo9I GATC 3 cut(s) 55, 190, 445
LmnI GCTCC 2 cut(s) 46, 96
LpnPI CCDG 6 cut(s) 101, 327, 347, 450, 624, 651
Lsp1109I GCAGC 3 cut(s) 99, 230, 571
MaeII ACGT 1 cut(s) 652
MaeIII GTNAC 2 cut(s) 385, 668
MalI GATC 3 cut(s) 57, 192, 447
MboI GATC 3 cut(s) 55, 190, 445
MboII GAAGA 7 cut(s) 190, 214, 257, 556, 587, 641, 654
MfeI CAATTG 1 cut(s) 675
MflI RGATCY 1 cut(s) 445
MhlI GDGCHC 2 cut(s) 124, 278
MluCI AATT 7 cut(s) 65, 135, 307, 404, 418, 454, 675
MlyI GAGTC 1 cut(s) 665
MnlI CCTC 6 cut(s) 87, 252, 280, 423, 462, 481
MseI TTAA 8 cut(s) 9, 29, 134, 398, 459, 483, 525, 558
MunI CAATTG 1 cut(s) 675
MvnI CGCG 1 cut(s) 521
NdeII GATC 3 cut(s) 55, 190, 445
NlaIII CATG 1 cut(s) 178
NlaIV GGNNCC 4 cut(s) 121, 122, 314, 686
NmuCI GTSAC 2 cut(s) 385, 668
PfeI GAWTC 1 cut(s) 302
PkrI GCNGC 3 cut(s) 114, 220, 586
PleI GAGTC 1 cut(s) 665
PpsI GAGTC 1 cut(s) 665
PspFI CCCAGC 1 cut(s) 361
PspN4I GGNNCC 4 cut(s) 121, 122, 314, 686
PspOMI GGGCCC 1 cut(s) 120
PspPI GGNCC 2 cut(s) 120, 121
PstI CTGCAG 1 cut(s) 117
PsuI RGATCY 1 cut(s) 445
SaqAI TTAA 8 cut(s) 9, 29, 134, 398, 459, 483, 525, 558
SatI GCNGC 3 cut(s) 113, 219, 585
Sau3AI GATC 3 cut(s) 55, 190, 445
Sau96I GGNCC 2 cut(s) 120, 121
SchI GAGTC 1 cut(s) 665
SduI GDGCHC 2 cut(s) 124, 278
SetI ASST 7 cut(s) 51, 114, 327, 363, 384, 434, 655
SfcI CTRYAG 1 cut(s) 113
Sse9I AATT 7 cut(s) 65, 135, 307, 404, 418, 454, 675
SsiI CCGC 1 cut(s) 539
SspI AATATT 1 cut(s) 7
TaiI ACGT 1 cut(s) 655
TasI AATT 7 cut(s) 65, 135, 307, 404, 418, 454, 675
TfiI GAWTC 1 cut(s) 302
Tru1I TTAA 8 cut(s) 9, 29, 134, 398, 459, 483, 525, 558
Tru9I TTAA 8 cut(s) 9, 29, 134, 398, 459, 483, 525, 558
TscAI CASTG 2 cut(s) 84, 270
TseFI GTSAC 2 cut(s) 385, 668
TseI GCWGC 3 cut(s) 112, 218, 584
Tsp45I GTSAC 2 cut(s) 385, 668
TspDTI ATGAA 5 cut(s) 17, 191, 384, 426, 558
TspRI CASTG 2 cut(s) 84, 270
XapI RAATTY 2 cut(s) 65, 454
XmiI GTMKAC 1 cut(s) 375
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.