RchiOBHm_Chr5g0027471

Component of LSM protein complexes, which are involved in RNA processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0016194
Physical Location & Seq
Reverse (-)
21407814 .. 21411214
3401 bp
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UTR
Exon/CDS
Intron
PRQ30702

Sequence Viewer

Length: 282 bp
ATGTTGTTCTTCTCCTACTTCAAGGAGTTGGTGGGCCGAGAAGTCACTGTGGAGCTCAAGAACGACCTTGCGATTAGGGGCACACTTCACTCCGTCGATCAGTATCTCAACATAAAGCTTGAGAACACTAGGGTTGTTGACCAGGACAAGTACCCCCACATGCTTTCAGTGAGGAACTGTTTTATCAGGGGGTCAGTTGTGAGATATGTTCAACTACCTCCAGAGGGAGTTGATGTTGAACTGCTGCACGATGCCACCAGAAGGGAAGCTCGGGGTGGTTGA

Protein Analysis

93

Amino Acids

10.76

Weight (kDa)

6.83

Isoelectric Point (pI)

14.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 6 - 71 3.5e-18 LSM 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
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Orthologous Genes (Group: OG0016194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G03330
fragaria_vesca FvH4_3g16480
malus_domestica MD05G1209800.v1.1 MD10G1196100.v1.1
prunus_persica Prupe.4G147700_v2.0.a1
pyrus_communis pycom10g16970
rosa_chinensis RchiOBHm_Chr5g0027471
rosa_multiflora Rmu_sc0007802.1_g000025
rosa_roxburghii Rroxscaffold_1G00052060
rosa_rugosa Rorug05G0099200
rosa_samantha Rh5AG193300 Rh5BG191400 Rh5CG211600 Rh5DG192800
rosa_wichuraiana Rw5G017620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 1 cut(s) 152
AfiI CCNNNNNNNGG 2 cut(s) 224, 261
AgsI TTSAA 3 cut(s) 22, 212, 239
AjnI CCWGG 1 cut(s) 141
AluBI AGCT 3 cut(s) 55, 118, 269
AluI AGCT 3 cut(s) 55, 118, 269
Alw21I GWGCWC 1 cut(s) 57
Ama87I CYCGRG 1 cut(s) 270
AoxI GGCC 1 cut(s) 34
ApeKI GCWGC 1 cut(s) 244
AspS9I GGNCC 1 cut(s) 34
AvaI CYCGRG 1 cut(s) 270
BaeGI GKGCMC 1 cut(s) 83
BanII GRGCYC 1 cut(s) 57
Bbv12I GWGCWC 1 cut(s) 57
BbvI GCAGC 1 cut(s) 231
BciT130I CCWGG 1 cut(s) 143
BfaI CTAG 1 cut(s) 129
BisI GCNGC 1 cut(s) 245
BlsI GCNGC 1 cut(s) 246
Bme1390I CCNGG 1 cut(s) 143
BmeT110I CYCGRG 1 cut(s) 270
BmgT120I GGNCC 1 cut(s) 34
BmrFI CCNGG 1 cut(s) 143
BmsI GCATC 1 cut(s) 241
BpmI CTGGAG 1 cut(s) 204
BpuEI CTTGAG 2 cut(s) 41, 140
BsaBI GATNNNNATC 1 cut(s) 102
BsaXI ACNNNNNCTCC 2 cut(s) 219, 249
Bsc4I CCNNNNNNNGG 2 cut(s) 224, 261
Bse8I GATNNNNATC 1 cut(s) 102
BseBI CCWGG 1 cut(s) 143
BseJI GATNNNNATC 1 cut(s) 102
BseLI CCNNNNNNNGG 2 cut(s) 224, 261
BseSI GKGCMC 1 cut(s) 83
BseXI GCAGC 1 cut(s) 231
BsgI GTGCAG 1 cut(s) 230
BshFI GGCC 1 cut(s) 36
BsiHKAI GWGCWC 1 cut(s) 57
BsiHKCI CYCGRG 1 cut(s) 270
BslI CCNNNNNNNGG 2 cut(s) 224, 261
BsnI GGCC 1 cut(s) 36
BsoBI CYCGRG 1 cut(s) 270
Bsp1286I GDGCHC 2 cut(s) 57, 83
Bsp143I GATC 1 cut(s) 97
BspANI GGCC 1 cut(s) 36
BssMI GATC 1 cut(s) 97
Bst2UI CCWGG 1 cut(s) 143
Bst4CI ACNGT 2 cut(s) 49, 179
BstKTI GATC 1 cut(s) 100
BstMBI GATC 1 cut(s) 97
BstNI CCWGG 1 cut(s) 143
BstNSI RCATGY 1 cut(s) 163
BstSCI CCNGG 1 cut(s) 141
BstSLI GKGCMC 1 cut(s) 83
BstV1I GCAGC 1 cut(s) 231
BsuRI GGCC 1 cut(s) 36
BtsIMutI CAGTG 2 cut(s) 45, 174
Cfr13I GGNCC 1 cut(s) 34
Csp6I GTAC 1 cut(s) 151
CviAII CATG 1 cut(s) 160
CviJI RGCY 4 cut(s) 36, 55, 118, 269
CviKI_1 RGCY 4 cut(s) 36, 55, 118, 269
CviQI GTAC 1 cut(s) 151
DpnI GATC 1 cut(s) 99
DpnII GATC 1 cut(s) 97
Ecl136II GAGCTC 1 cut(s) 55
Eco24I GRGCYC 1 cut(s) 57
Eco53kI GAGCTC 1 cut(s) 55
Eco88I CYCGRG 1 cut(s) 270
EcoICRI GAGCTC 1 cut(s) 55
EcoRII CCWGG 1 cut(s) 141
EcoT38I GRGCYC 1 cut(s) 57
FaeI CATG 1 cut(s) 163
FaiI YATR 3 cut(s) 113, 161, 207
FatI CATG 1 cut(s) 159
Fnu4HI GCNGC 1 cut(s) 245
FriOI GRGCYC 1 cut(s) 57
Fsp4HI GCNGC 1 cut(s) 245
FspBI CTAG 1 cut(s) 129
GluI GCNGC 1 cut(s) 245
GsuI CTGGAG 1 cut(s) 204
HaeIII GGCC 1 cut(s) 36
Hin1II CATG 1 cut(s) 163
HincII GTYRAC 1 cut(s) 139
HindII GTYRAC 1 cut(s) 139
HindIII AAGCTT 1 cut(s) 116
Hpy166II GTNNAC 1 cut(s) 139
Hpy188III TCNNGA 2 cut(s) 58, 221
Hpy8I GTNNAC 1 cut(s) 139
Hpy99I CGWCG 1 cut(s) 98
HpyAV CCTTC 1 cut(s) 255
HpyCH4III ACNGT 2 cut(s) 49, 179
HpyCH4V TGCA 1 cut(s) 247
Hsp92II CATG 1 cut(s) 163
Kzo9I GATC 1 cut(s) 97
LmnI GCTCC 1 cut(s) 52
LpnPI CCDG 5 cut(s) 128, 155, 172, 234, 271
Lsp1109I GCAGC 1 cut(s) 231
LweI GCATC 1 cut(s) 241
MaeI CTAG 1 cut(s) 129
MaeIII GTNAC 1 cut(s) 43
MalI GATC 1 cut(s) 99
MboI GATC 1 cut(s) 97
MhlI GDGCHC 2 cut(s) 57, 83
MnlI CCTC 3 cut(s) 165, 217, 228
MspR9I CCNGG 1 cut(s) 143
MvaI CCWGG 1 cut(s) 143
NdeII GATC 1 cut(s) 97
NlaIII CATG 1 cut(s) 163
NmeAIII GCCGAG 1 cut(s) 62
NmuCI GTSAC 1 cut(s) 43
NspI RCATGY 1 cut(s) 163
PkrI GCNGC 1 cut(s) 246
Psp124BI GAGCTC 1 cut(s) 57
Psp6I CCWGG 1 cut(s) 141
PspGI CCWGG 1 cut(s) 141
PspPI GGNCC 1 cut(s) 34
RsaI GTAC 1 cut(s) 152
RsaNI GTAC 1 cut(s) 151
SacI GAGCTC 1 cut(s) 57
SatI GCNGC 1 cut(s) 245
Sau3AI GATC 1 cut(s) 97
Sau96I GGNCC 1 cut(s) 34
ScrFI CCNGG 1 cut(s) 143
SduI GDGCHC 2 cut(s) 57, 83
SetI ASST 5 cut(s) 57, 69, 120, 220, 271
SfaNI GCATC 1 cut(s) 241
SmlI CTYRAG 2 cut(s) 56, 119
SmoI CTYRAG 2 cut(s) 56, 119
SspMI CTAG 1 cut(s) 129
SstI GAGCTC 1 cut(s) 57
StyD4I CCNGG 1 cut(s) 141
TaaI ACNGT 2 cut(s) 49, 179
TaqI TCGA 1 cut(s) 96
TscAI CASTG 2 cut(s) 52, 174
TseFI GTSAC 1 cut(s) 43
TseI GCWGC 1 cut(s) 244
Tsp45I GTSAC 1 cut(s) 43
TspGWI ACGGA 1 cut(s) 82
TspRI CASTG 2 cut(s) 52, 174
XceI RCATGY 1 cut(s) 163
XspI CTAG 1 cut(s) 129
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.