RchiOBHm_Chr5g0038981

Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication. The activity of RPA is mediated by single-stranded DNA binding and protein interactions. Probably involved in repair of double-strand DNA breaks (DSBs) induced by genotoxic stresses

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0019887
Physical Location & Seq
Reverse (-)
33721230 .. 33721517
288 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31756

Sequence Viewer

Length: 192 bp
ATGCGTACTTACACGAATGCTAGAGGTCAAGGCCATGTCTTCAATGCGGAGTTAACAGACGAAGATAGAACTGAAATTCAAGCTGCAATGTTTAATGAAGCTGTAAGGAAGTTTTTTGAAAAGTTTCAACTAGGGAAGGTTTATTATATTTCAAAGGGAGCTCTGACGTTGATGAAGTCAGCAATGAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000228 GO:0000278 GO:0000723 GO:0000724 GO:0000725 GO:0000781 GO:0000784 GO:0000785 GO:0000790 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005662 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006268 GO:0006278 GO:0006279 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007004 GO:0007049 GO:0007063 GO:0007088 GO:0007346 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010224 GO:0010556 GO:0010557 GO:0010564 GO:0010604 GO:0010638 GO:0010639 GO:0010833 GO:0010948 GO:0016043 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022402 GO:0022414 GO:0030894 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032200 GO:0032204 GO:0032206 GO:0032210 GO:0032212 GO:0032392 GO:0032508 GO:0032879 GO:0032880 GO:0032991 GO:0032993 GO:0033043 GO:0033044 GO:0033045 GO:0033046 GO:0033047 GO:0033048 GO:0033260 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0035861 GO:0042162 GO:0042592 GO:0043047 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044786 GO:0045786 GO:0045839 GO:0045875 GO:0045930 GO:0045935 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051098 GO:0051101 GO:0051128 GO:0051129 GO:0051130 GO:0051171 GO:0051173 GO:0051276 GO:0051321 GO:0051716 GO:0051726 GO:0051783 GO:0051784 GO:0051983 GO:0051985 GO:0060249 GO:0060255 GO:0060341 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070034 GO:0071103 GO:0071704 GO:0071840 GO:0071897 GO:0071922 GO:0071923 GO:0080090 GO:0090304 GO:0090734 GO:0097159 GO:0098687 GO:0098847 GO:0106111 GO:0106112 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902969 GO:1903046 GO:1903047 GO:1903827 GO:1903828 GO:1904356 GO:1904358 GO:1905405 GO:1905412 GO:1905634 GO:2000112 GO:2000278 GO:2000573 GO:2001251 GO:2001252
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
REPA_OB_2 Rep-A_N Rep_fac-A_C tRNA_anti-codon

Protein Analysis

63

Amino Acids

7.28

Weight (kDa)

9.45

Isoelectric Point (pI)

6.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA_anti-codon PF01336 6 - 55 3.6e-07 OB-fold nucleic acid binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019887)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0106871 RchiOBHm_Chr4g0402291 RchiOBHm_Chr5g0032071 RchiOBHm_Chr5g0038981
rosa_laevigata RLG00000019627
rosa_samantha Rh2BG201800 Rh5BG223600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 47
AcsI RAATTY 1 cut(s) 75
AfaI GTAC 1 cut(s) 7
AgsI TTSAA 5 cut(s) 43, 80, 119, 128, 153
AluBI AGCT 3 cut(s) 83, 101, 161
AluI AGCT 3 cut(s) 83, 101, 161
Alw21I GWGCWC 1 cut(s) 163
AoxI GGCC 1 cut(s) 31
ApeKI GCWGC 1 cut(s) 83
ApoI RAATTY 1 cut(s) 75
Asp700I GAANNNNTTC 1 cut(s) 123
BanII GRGCYC 1 cut(s) 163
BbsI GAAGAC 1 cut(s) 31
Bbv12I GWGCWC 1 cut(s) 163
BbvI GCAGC 1 cut(s) 70
BfaI CTAG 2 cut(s) 21, 131
BisI GCNGC 1 cut(s) 84
BlsI GCNGC 1 cut(s) 85
BpiI GAAGAC 1 cut(s) 31
Bse3DI GCAATG 2 cut(s) 93, 189
BseMI GCAATG 2 cut(s) 93, 189
BseXI GCAGC 1 cut(s) 70
BshFI GGCC 1 cut(s) 33
BsiHKAI GWGCWC 1 cut(s) 163
BsmI GAATGC 1 cut(s) 22
BsnI GGCC 1 cut(s) 33
Bsp1286I GDGCHC 1 cut(s) 163
BspACI CCGC 1 cut(s) 47
BspANI GGCC 1 cut(s) 33
BsrDI GCAATG 2 cut(s) 93, 189
BstV1I GCAGC 1 cut(s) 70
BstV2I GAAGAC 1 cut(s) 31
BsuRI GGCC 1 cut(s) 33
Csp6I GTAC 1 cut(s) 6
CviAII CATG 1 cut(s) 35
CviJI RGCY 4 cut(s) 33, 83, 101, 161
CviKI_1 RGCY 4 cut(s) 33, 83, 101, 161
CviQI GTAC 1 cut(s) 6
Ecl136II GAGCTC 1 cut(s) 161
Eco24I GRGCYC 1 cut(s) 163
Eco53kI GAGCTC 1 cut(s) 161
EcoICRI GAGCTC 1 cut(s) 161
EcoT38I GRGCYC 1 cut(s) 163
FaeI CATG 1 cut(s) 38
FaiI YATR 2 cut(s) 36, 147
FatI CATG 1 cut(s) 34
Fnu4HI GCNGC 1 cut(s) 84
FriOI GRGCYC 1 cut(s) 163
Fsp4HI GCNGC 1 cut(s) 84
FspBI CTAG 2 cut(s) 21, 131
GluI GCNGC 1 cut(s) 84
HaeIII GGCC 1 cut(s) 33
Hin1II CATG 1 cut(s) 38
HincII GTYRAC 1 cut(s) 54
HindII GTYRAC 1 cut(s) 54
HpaI GTTAAC 1 cut(s) 54
Hpy166II GTNNAC 1 cut(s) 54
Hpy188I TCNGA 1 cut(s) 165
Hpy8I GTNNAC 1 cut(s) 54
HpyAV CCTTC 1 cut(s) 130
HpyCH4IV ACGT 1 cut(s) 167
HpyCH4V TGCA 1 cut(s) 86
HpySE526I ACGT 1 cut(s) 167
Hsp92II CATG 1 cut(s) 38
KspAI GTTAAC 1 cut(s) 54
LmnI GCTCC 1 cut(s) 158
Lsp1109I GCAGC 1 cut(s) 70
MaeI CTAG 2 cut(s) 21, 131
MaeII ACGT 1 cut(s) 167
MboII GAAGA 2 cut(s) 31, 74
MhlI GDGCHC 1 cut(s) 163
MluCI AATT 1 cut(s) 75
MnlI CCTC 1 cut(s) 17
MroXI GAANNNNTTC 1 cut(s) 123
MseI TTAA 2 cut(s) 53, 93
Mva1269I GAATGC 1 cut(s) 22
NlaIII CATG 1 cut(s) 38
PctI GAATGC 1 cut(s) 22
PdmI GAANNNNTTC 1 cut(s) 123
PkrI GCNGC 1 cut(s) 85
Psp124BI GAGCTC 1 cut(s) 163
RsaI GTAC 1 cut(s) 7
RsaNI GTAC 1 cut(s) 6
SacI GAGCTC 1 cut(s) 163
SaqAI TTAA 2 cut(s) 53, 93
SatI GCNGC 1 cut(s) 84
SduI GDGCHC 1 cut(s) 163
SetI ASST 6 cut(s) 28, 85, 103, 141, 163, 170
SgeI CNNG 6 cut(s) 25, 33, 41, 47, 92, 143
Sse9I AATT 1 cut(s) 75
SsiI CCGC 1 cut(s) 47
SspMI CTAG 2 cut(s) 21, 131
SstI GAGCTC 1 cut(s) 163
TaiI ACGT 1 cut(s) 170
TasI AATT 1 cut(s) 75
Tru1I TTAA 2 cut(s) 53, 93
Tru9I TTAA 2 cut(s) 53, 93
TseI GCWGC 1 cut(s) 83
TspDTI ATGAA 2 cut(s) 111, 188
XapI RAATTY 1 cut(s) 75
XmnI GAANNNNTTC 1 cut(s) 123
XspI CTAG 2 cut(s) 21, 131
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.