Rroxscaffold_1G00036110

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000340
Physical Location & Seq
Reverse (-)
52755922 .. 52756518
597 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00036110.1

Sequence Viewer

Length: 384 bp
ATGAACTTGAACAAATCCAAGCTTCAGGAGATGTGCCAAGCCAGAGGTTGGACCTTCCCCAAGTACAGCAGCAACCAGCAAGGCCCACCTCACCGACCTCGCTTCTCAGCCTCTGTGCTCGTCCATGGCTTCACCTTCAACACTAAAACTATGCTGACCTCTAAGAAAGAAGCCGAGTGCTGTGTTGCTGGGTTGGCCTTAGATTACTTCGATGAAAACCCACAACCCAAACGCAAGTGTTTCTCTTTCCTGGCTCAGCCTTCTCATATACCTTCACTTCCTCCGCCTTCATCACCAGGTTTACTGTATCACACATACAAGCAGAATGAGATATCTGTGAGTCTAAGGTTGATATTTCTGATTCTGTTCCTGAAGAAAGGTTAA
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

127

Amino Acids

14.4

Weight (kDa)

9.66

Isoelectric Point (pI)

54.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 5 - 67 9.8e-11 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)
AccB7I CCANNNNNTGG 1 cut(s) 48
AciI CCGC 1 cut(s) 284
AcuI CTGAAG 1 cut(s) 8
AfaI GTAC 1 cut(s) 65
AfiI CCNNNNNNNGG 1 cut(s) 48
AgsI TTSAA 2 cut(s) 10, 139
AjnI CCWGG 2 cut(s) 249, 295
AluBI AGCT 1 cut(s) 22
AluI AGCT 1 cut(s) 22
Alw21I GWGCWC 1 cut(s) 120
AlwNI CAGNNNCTG 1 cut(s) 113
AoxI GGCC 2 cut(s) 82, 195
ApeKI GCWGC 1 cut(s) 69
AspS9I GGNCC 2 cut(s) 51, 83
AsuHPI GGTGA 3 cut(s) 83, 124, 285
AvaII GGWCC 1 cut(s) 51
Bbv12I GWGCWC 1 cut(s) 120
BbvI GCAGC 1 cut(s) 81
BciT130I CCWGG 2 cut(s) 251, 297
BisI GCNGC 1 cut(s) 70
BlpI GCTNAGC 1 cut(s) 255
BlsI GCNGC 1 cut(s) 71
Bme1390I CCNGG 2 cut(s) 251, 297
Bme18I GGWCC 1 cut(s) 51
BmgT120I GGNCC 2 cut(s) 51, 83
BmrFI CCNGG 2 cut(s) 251, 297
Bpu1102I GCTNAGC 1 cut(s) 255
BsaJI CCNNGG 1 cut(s) 124
Bsc4I CCNNNNNNNGG 1 cut(s) 48
BseBI CCWGG 2 cut(s) 251, 297
BseDI CCNNGG 1 cut(s) 124
BseLI CCNNNNNNNGG 1 cut(s) 48
BseMII CTCAG 2 cut(s) 120, 269
BseXI GCAGC 1 cut(s) 81
BseYI CCCAGC 1 cut(s) 188
BshFI GGCC 2 cut(s) 84, 197
BsiHKAI GWGCWC 1 cut(s) 120
BslI CCNNNNNNNGG 1 cut(s) 48
BsnI GGCC 2 cut(s) 84, 197
Bsp1286I GDGCHC 1 cut(s) 120
Bsp1720I GCTNAGC 1 cut(s) 255
Bsp19I CCATGG 1 cut(s) 124
BspACI CCGC 1 cut(s) 284
BspANI GGCC 2 cut(s) 84, 197
BspCNI CTCAG 2 cut(s) 119, 268
BssECI CCNNGG 1 cut(s) 124
BssT1I CCWWGG 1 cut(s) 124
Bst2UI CCWGG 2 cut(s) 251, 297
Bst4CI ACNGT 1 cut(s) 306
BstDEI CTNAG 5 cut(s) 106, 162, 199, 255, 344
BstDSI CCRYGG 1 cut(s) 124
BstMWI GCNNNNNNNGC 1 cut(s) 194
BstNI CCWGG 2 cut(s) 251, 297
BstSCI CCNGG 2 cut(s) 249, 295
BstV1I GCAGC 1 cut(s) 81
BsuRI GGCC 2 cut(s) 84, 197
BtgI CCRYGG 1 cut(s) 124
CaiI CAGNNNCTG 1 cut(s) 113
Cfr13I GGNCC 2 cut(s) 51, 83
CsiI ACCWGGT 1 cut(s) 295
Csp6I GTAC 1 cut(s) 64
CviAII CATG 1 cut(s) 125
CviJI RGCY 9 cut(s) 22, 41, 84, 110, 129, 173, 197, 254, 259
CviKI_1 RGCY 9 cut(s) 22, 41, 84, 110, 129, 173, 197, 254, 259
CviQI GTAC 1 cut(s) 64
DdeI CTNAG 5 cut(s) 106, 162, 199, 255, 344
EciI GGCGGA 1 cut(s) 273
Eco130I CCWWGG 1 cut(s) 124
Eco32I GATATC 1 cut(s) 333
Eco47I GGWCC 1 cut(s) 51
Eco57I CTGAAG 1 cut(s) 8
EcoRII CCWGG 2 cut(s) 249, 295
EcoRV GATATC 1 cut(s) 333
EcoT14I CCWWGG 1 cut(s) 124
ErhI CCWWGG 1 cut(s) 124
FaeI CATG 1 cut(s) 128
FaiI YATR 5 cut(s) 126, 152, 267, 269, 316
FatI CATG 1 cut(s) 124
Fnu4HI GCNGC 1 cut(s) 70
Fsp4HI GCNGC 1 cut(s) 70
GluI GCNGC 1 cut(s) 70
GsaI CCCAGC 1 cut(s) 192
HaeIII GGCC 2 cut(s) 84, 197
Hin1II CATG 1 cut(s) 128
HindIII AAGCTT 1 cut(s) 20
HinfI GANTC 2 cut(s) 340, 361
HphI GGTGA 3 cut(s) 83, 124, 285
Hpy166II GTNNAC 1 cut(s) 302
Hpy188I TCNGA 1 cut(s) 360
Hpy188III TCNNGA 2 cut(s) 26, 370
Hpy8I GTNNAC 1 cut(s) 302
HpyAV CCTTC 5 cut(s) 64, 145, 270, 282, 297
HpyCH4III ACNGT 1 cut(s) 306
HpyF10VI GCNNNNNNNGC 1 cut(s) 194
HpyF3I CTNAG 5 cut(s) 106, 162, 199, 255, 344
Hsp92II CATG 1 cut(s) 128
LpnPI CCDG 8 cut(s) 11, 55, 89, 174, 236, 263, 282, 309
Lsp1109I GCAGC 1 cut(s) 81
MabI ACCWGGT 1 cut(s) 295
MhlI GDGCHC 1 cut(s) 120
MlyI GAGTC 1 cut(s) 349
MmeI TCCRAC 1 cut(s) 29
MnlI CCTC 6 cut(s) 38, 99, 108, 121, 169, 291
MseI TTAA 1 cut(s) 382
MspR9I CCNGG 2 cut(s) 251, 297
MvaI CCWGG 2 cut(s) 251, 297
MwoI GCNNNNNNNGC 1 cut(s) 194
NcoI CCATGG 1 cut(s) 124
NlaIII CATG 1 cut(s) 128
NmeAIII GCCGAG 1 cut(s) 199
PfeI GAWTC 1 cut(s) 361
PflMI CCANNNNNTGG 1 cut(s) 48
PkrI GCNGC 1 cut(s) 71
PleI GAGTC 1 cut(s) 348
PpsI GAGTC 1 cut(s) 348
Psp6I CCWGG 2 cut(s) 249, 295
PspFI CCCAGC 1 cut(s) 188
PspGI CCWGG 2 cut(s) 249, 295
PspPI GGNCC 2 cut(s) 51, 83
PstNI CAGNNNCTG 1 cut(s) 113
RsaI GTAC 1 cut(s) 65
RsaNI GTAC 1 cut(s) 64
SaqAI TTAA 1 cut(s) 382
SatI GCNGC 1 cut(s) 70
Sau96I GGNCC 2 cut(s) 51, 83
SchI GAGTC 1 cut(s) 349
ScrFI CCNGG 2 cut(s) 251, 297
SduI GDGCHC 1 cut(s) 120
SexAI ACCWGGT 1 cut(s) 295
SinI GGWCC 1 cut(s) 51
SsiI CCGC 1 cut(s) 284
StyD4I CCNGG 2 cut(s) 249, 295
StyI CCWWGG 1 cut(s) 124
TaaI ACNGT 1 cut(s) 306
TaqI TCGA 1 cut(s) 210
TatI WGTACW 1 cut(s) 63
TfiI GAWTC 1 cut(s) 361
Tru1I TTAA 1 cut(s) 382
Tru9I TTAA 1 cut(s) 382
TseI GCWGC 1 cut(s) 69
TspDTI ATGAA 3 cut(s) 17, 228, 279
Van91I CCANNNNNTGG 1 cut(s) 48
VpaK11BI GGWCC 1 cut(s) 51
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.