Rh5BG309600

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000340
Physical Location & Seq
Forward (+)
40536931 .. 40539110
2180 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG309600.1

Sequence Viewer

Length: 861 bp
ATGTGCCAAGCCAGAGGTTGGACCTTCCCCAAGTACAGCAGCAACCAGCAAGGCCCACCTCACCGACCTCGCTTCTCAGCCTCTGTGCTCGTCCATGGCTTCACCTTCAACACTAAAACTATGCTGACCTCTAAGAAAGAAGCCGAGTGCTGTGCTGCTGGGTTGGCCTTAGATTACTTCGATGAAAACCCACAACCACCCCAGCCCAAACGCACCAAGTGTTTCTCTTTCCCGGCTCAGCCTTCTCATATAGCTCCACCTTCATCACCAGGTTTGCCGTATCTCACATACAAGGAGAAAGAGATATGGAATGAGACAACTAGCACAGAGGGAAAGAAGGACACTTATGAACTGGAGCTAATGTTGGCAGAAGAGAGAAAGCTATGGCAGAGAGAAAAGCATCAGCTTCAACTAAAGAACATTGAATTGGAGAATCAGATTGATATGAAAAAGAATGAGCTGGAGCACTGCTGCAAGGAGCTACAGCATATGAATGAGAGAGAAGAATCAGAGCAGAAGAAAGCAGAAAATCTGATAGCGCTTGCAGAAAAGAGAAAGAGAGAAAATGAGAAGCTTCACTCAGAAATAATTGAATTGAAAGACCAGCTCCAAGCCAAACAGGCAGTGAATGAGGATTTTGAGGCCCAGAAGAATGTTAAAGCACTTGAACAAATGTTAAAGGAGAAGGAGCAGGAGCTTACTGATCTGTCAGAATTTTACAATGCACTGATTTTCAAGGAGAGGAGCAATAATGATGAGCTACAGGGGGCCCGTAAAGAGTTAATTGATGTATGTTCATATTCTAAGCATGTTTTCGATATAGTTTATAAACTATTTCCCTACACTATATATTGGAACTAA
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

33.6

Weight (kDa)

5.99

Isoelectric Point (pI)

50.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 2 - 58 1.3e-07 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
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)
AanI TTATAA 1 cut(s) 828
AccB7I CCANNNNNTGG 1 cut(s) 18
AcsI RAATTY 1 cut(s) 713
AdeI CACNNNGTG 1 cut(s) 219
AfaI GTAC 1 cut(s) 35
AfeI AGCGCT 1 cut(s) 540
AfiI CCNNNNNNNGG 1 cut(s) 18
AgsI TTSAA 7 cut(s) 109, 410, 425, 593, 598, 668, 736
AjnI CCWGG 1 cut(s) 268
AjuI GAANNNNNNNTTGG 2 cut(s) 410, 442
Alw21I GWGCWC 2 cut(s) 90, 468
Alw26I GTCTC 1 cut(s) 308
AlwNI CAGNNNCTG 1 cut(s) 83
Aor51HI AGCGCT 1 cut(s) 540
AoxI GGCC 4 cut(s) 52, 165, 642, 768
ApaI GGGCCC 1 cut(s) 772
ApeKI GCWGC 3 cut(s) 39, 155, 471
ApoI RAATTY 1 cut(s) 713
AspLEI GCGC 1 cut(s) 541
AspS9I GGNCC 5 cut(s) 21, 53, 643, 768, 769
AsuC2I CCSGG 1 cut(s) 233
AsuHPI GGTGA 3 cut(s) 53, 94, 258
AvaII GGWCC 1 cut(s) 21
BaeGI GKGCMC 1 cut(s) 772
BanII GRGCYC 1 cut(s) 772
Bbv12I GWGCWC 2 cut(s) 90, 468
BbvI GCAGC 3 cut(s) 51, 142, 458
BceAI ACGGC 1 cut(s) 262
BcgI CGANNNNNNTGC 2 cut(s) 134, 168
BciT130I CCWGG 1 cut(s) 270
BcnI CCSGG 1 cut(s) 233
BcoDI GTCTC 1 cut(s) 308
BfaI CTAG 1 cut(s) 321
BfmI CTRYAG 2 cut(s) 482, 761
BfoI RGCGCY 1 cut(s) 542
BglI GCCNNNNNGGC 1 cut(s) 620
BisI GCNGC 3 cut(s) 40, 156, 472
BlpI GCTNAGC 1 cut(s) 237
BlsI GCNGC 3 cut(s) 41, 157, 473
Bme1390I CCNGG 2 cut(s) 233, 270
Bme18I GGWCC 1 cut(s) 21
BmgT120I GGNCC 5 cut(s) 21, 53, 643, 768, 769
BmiI GGNNCC 2 cut(s) 769, 770
BmrFI CCNGG 2 cut(s) 233, 270
BmsI GCATC 1 cut(s) 409
BpmI CTGGAG 2 cut(s) 374, 482
Bpu1102I GCTNAGC 1 cut(s) 237
BpuMI CCSGG 1 cut(s) 233
BsaJI CCNNGG 1 cut(s) 94
BsaXI ACNNNNNCTCC 2 cut(s) 347, 377
Bsc4I CCNNNNNNNGG 1 cut(s) 18
Bse1I ACTGG 1 cut(s) 357
BseBI CCWGG 1 cut(s) 270
BseDI CCNNGG 1 cut(s) 94
BseLI CCNNNNNNNGG 1 cut(s) 18
BseMII CTCAG 3 cut(s) 90, 251, 594
BseNI ACTGG 1 cut(s) 357
BseRI GAGGAG 1 cut(s) 757
BseSI GKGCMC 1 cut(s) 772
BseXI GCAGC 3 cut(s) 51, 142, 458
BseYI CCCAGC 2 cut(s) 158, 201
BshFI GGCC 4 cut(s) 54, 167, 644, 770
BsiHKAI GWGCWC 2 cut(s) 90, 468
BsiSI CCGG 1 cut(s) 233
BslI CCNNNNNNNGG 1 cut(s) 18
BsmAI GTCTC 1 cut(s) 308
BsnI GGCC 4 cut(s) 54, 167, 644, 770
Bsp120I GGGCCC 1 cut(s) 768
Bsp1286I GDGCHC 3 cut(s) 90, 468, 772
Bsp143I GATC 1 cut(s) 703
Bsp1720I GCTNAGC 1 cut(s) 237
Bsp19I CCATGG 1 cut(s) 94
BspANI GGCC 4 cut(s) 54, 167, 644, 770
BspCNI CTCAG 3 cut(s) 89, 250, 593
BspLI GGNNCC 2 cut(s) 769, 770
BsrI ACTGG 1 cut(s) 357
BssECI CCNNGG 1 cut(s) 94
BssMI GATC 1 cut(s) 703
BssT1I CCWWGG 1 cut(s) 94
Bst2UI CCWGG 1 cut(s) 270
Bst6I CTCTTC 1 cut(s) 366
BstC8I GCNNGC 1 cut(s) 543
BstDEI CTNAG 6 cut(s) 76, 132, 169, 237, 580, 804
BstDSI CCRYGG 1 cut(s) 94
BstH2I RGCGCY 1 cut(s) 542
BstHHI GCGC 1 cut(s) 541
BstKTI GATC 1 cut(s) 706
BstMAI GTCTC 1 cut(s) 308
BstMBI GATC 1 cut(s) 703
BstMWI GCNNNNNNNGC 2 cut(s) 164, 620
BstNI CCWGG 1 cut(s) 270
BstNSI RCATGY 1 cut(s) 812
BstSCI CCNGG 2 cut(s) 231, 268
BstSFI CTRYAG 2 cut(s) 482, 761
BstSLI GKGCMC 1 cut(s) 772
BstV1I GCAGC 3 cut(s) 51, 142, 458
BsuRI GGCC 4 cut(s) 54, 167, 644, 770
BtgI CCRYGG 1 cut(s) 94
BtsI GCAGTG 2 cut(s) 466, 630
BtsIMutI CAGTG 3 cut(s) 466, 630, 725
Cac8I GCNNGC 1 cut(s) 543
CaiI CAGNNNCTG 1 cut(s) 83
CfoI GCGC 1 cut(s) 541
Cfr13I GGNCC 5 cut(s) 21, 53, 643, 768, 769
CsiI ACCWGGT 1 cut(s) 268
Csp6I GTAC 1 cut(s) 34
CviAII CATG 2 cut(s) 95, 809
CviQI GTAC 1 cut(s) 34
DdeI CTNAG 6 cut(s) 76, 132, 169, 237, 580, 804
DpnI GATC 1 cut(s) 705
DpnII GATC 1 cut(s) 703
DraIII CACNNNGTG 1 cut(s) 219
Eam1104I CTCTTC 1 cut(s) 366
EarI CTCTTC 1 cut(s) 366
Eco130I CCWWGG 1 cut(s) 94
Eco24I GRGCYC 1 cut(s) 772
Eco47I GGWCC 1 cut(s) 21
Eco47III AGCGCT 1 cut(s) 540
EcoO109I RGGNCCY 1 cut(s) 768
EcoRII CCWGG 1 cut(s) 268
EcoT14I CCWWGG 1 cut(s) 94
EcoT38I GRGCYC 1 cut(s) 772
ErhI CCWWGG 1 cut(s) 94
FaeI CATG 2 cut(s) 98, 812
FatI CATG 2 cut(s) 94, 808
FauNDI CATATG 1 cut(s) 489
Fnu4HI GCNGC 3 cut(s) 40, 156, 472
FriOI GRGCYC 1 cut(s) 772
Fsp4HI GCNGC 3 cut(s) 40, 156, 472
FspBI CTAG 1 cut(s) 321
GlaI GCGC 1 cut(s) 540
GluI GCNGC 3 cut(s) 40, 156, 472
GsaI CCCAGC 2 cut(s) 162, 205
GsuI CTGGAG 2 cut(s) 374, 482
HaeII RGCGCY 1 cut(s) 542
HaeIII GGCC 4 cut(s) 54, 167, 644, 770
HapII CCGG 1 cut(s) 233
HhaI GCGC 1 cut(s) 541
Hin1II CATG 2 cut(s) 98, 812
Hin6I GCGC 1 cut(s) 539
HinP1I GCGC 1 cut(s) 539
HindIII AAGCTT 1 cut(s) 572
HinfI GANTC 2 cut(s) 433, 506
HpaII CCGG 1 cut(s) 233
HphI GGTGA 3 cut(s) 53, 94, 258
Hpy188I TCNGA 5 cut(s) 438, 511, 534, 583, 712
HpyAV CCTTC 6 cut(s) 34, 115, 252, 270, 331, 679
HpyCH4V TGCA 3 cut(s) 474, 545, 725
HpyF10VI GCNNNNNNNGC 2 cut(s) 164, 620
HpyF3I CTNAG 6 cut(s) 76, 132, 169, 237, 580, 804
Hsp92II CATG 2 cut(s) 98, 812
HspAI GCGC 1 cut(s) 539
Kzo9I GATC 1 cut(s) 703
LmnI GCTCC 8 cut(s) 259, 355, 463, 478, 612, 688, 694, 744
Lsp1109I GCAGC 3 cut(s) 51, 142, 458
LweI GCATC 1 cut(s) 409
MabI ACCWGGT 1 cut(s) 268
MaeI CTAG 1 cut(s) 321
MalI GATC 1 cut(s) 705
MboI GATC 1 cut(s) 703
MboII GAAGA 4 cut(s) 383, 515, 529, 661
MhlI GDGCHC 3 cut(s) 90, 468, 772
MluCI AATT 5 cut(s) 425, 588, 593, 713, 783
MnlI CCTC 9 cut(s) 8, 69, 78, 91, 139, 322, 625, 634, 735
MseI TTAA 3 cut(s) 657, 677, 782
MslI CAYNNNNRTG 1 cut(s) 492
MspI CCGG 1 cut(s) 233
MspR9I CCNGG 2 cut(s) 233, 270
MvaI CCWGG 1 cut(s) 270
MwoI GCNNNNNNNGC 2 cut(s) 164, 620
NciI CCSGG 1 cut(s) 233
NcoI CCATGG 1 cut(s) 94
NdeI CATATG 1 cut(s) 489
NdeII GATC 1 cut(s) 703
NlaIII CATG 2 cut(s) 98, 812
NlaIV GGNNCC 2 cut(s) 769, 770
NmeAIII GCCGAG 1 cut(s) 169
NspI RCATGY 1 cut(s) 812
PfeI GAWTC 2 cut(s) 433, 506
PflMI CCANNNNNTGG 1 cut(s) 18
PkrI GCNGC 3 cut(s) 41, 157, 473
PsiI TTATAA 1 cut(s) 828
Psp6I CCWGG 1 cut(s) 268
PspFI CCCAGC 2 cut(s) 158, 201
PspGI CCWGG 1 cut(s) 268
PspN4I GGNNCC 2 cut(s) 769, 770
PspOMI GGGCCC 1 cut(s) 768
PspPI GGNCC 5 cut(s) 21, 53, 643, 768, 769
PstNI CAGNNNCTG 1 cut(s) 83
RsaI GTAC 1 cut(s) 35
RsaNI GTAC 1 cut(s) 34
RseI CAYNNNNRTG 1 cut(s) 492
SaqAI TTAA 3 cut(s) 657, 677, 782
SatI GCNGC 3 cut(s) 40, 156, 472
Sau3AI GATC 1 cut(s) 703
Sau96I GGNCC 5 cut(s) 21, 53, 643, 768, 769
ScrFI CCNGG 2 cut(s) 233, 270
SduI GDGCHC 3 cut(s) 90, 468, 772
SexAI ACCWGGT 1 cut(s) 268
SfaNI GCATC 1 cut(s) 409
SfcI CTRYAG 2 cut(s) 482, 761
SinI GGWCC 1 cut(s) 21
SmiMI CAYNNNNRTG 1 cut(s) 492
Sse9I AATT 5 cut(s) 425, 588, 593, 713, 783
SspMI CTAG 1 cut(s) 321
StyD4I CCNGG 2 cut(s) 231, 268
StyI CCWWGG 1 cut(s) 94
TaqI TCGA 2 cut(s) 180, 816
TasI AATT 5 cut(s) 425, 588, 593, 713, 783
TatI WGTACW 1 cut(s) 33
TfiI GAWTC 2 cut(s) 433, 506
Tru1I TTAA 3 cut(s) 657, 677, 782
Tru9I TTAA 3 cut(s) 657, 677, 782
TscAI CASTG 3 cut(s) 473, 630, 732
TseI GCWGC 3 cut(s) 39, 155, 471
TspDTI ATGAA 6 cut(s) 198, 252, 363, 461, 506, 786
TspRI CASTG 3 cut(s) 473, 630, 732
Van91I CCANNNNNTGG 1 cut(s) 18
VpaK11BI GGWCC 1 cut(s) 21
XapI RAATTY 1 cut(s) 713
XceI RCATGY 1 cut(s) 812
XspI CTAG 1 cut(s) 321
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.