Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0005462

Physical Location & Seq

Genomic Coordinates Reverse (-)

46619400 .. 46626599

Gene Structure 7200 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ45842

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGAAAGCAGAGGGTAGAATCAGAATTGAAAAAGGCAAAGCTGCGGGGAGAGGGAGAGAGAGAGTCCACGATTTCCCGCCACTTTTGCCGTCTGAAGAATCGAAGATGCTGTGGGTAGACAAGTACAGACCCAAAACCCTAGACCAGGCAATGGTCCACCAAGACACGGCGCAAAACCTCAAGAAACTTGTCGCAGAGCAGGACTGCCCCCATTTGCTCTTTTACGGGCCTTCCGGCTCCGGCAAGAAAACCCTAATCATTGCCCTTATTCGTCAGATTTTCGGACCCAGCGCCGACAAGGTGAAGGTGGAAAACAGGACATGGAAAGTTGATGCTGGGAGTAGAACCATTGACATAGAGCTGACTACATTATCAAGCACCAATCACATTGAACTCAACCCCAGTGATGCAGGCTTTCAGGACAGATACATTGTTCAAGAGATAATTAAGGAAATGGCTAAAAATAGACCCATTGACACAAAAGGGAAAAAAGGATATAAAATCTTGGTGTTGAATGAAGTTGACAAACTTTCAAGAGAAGCACAGCATTCTCTTCGAAGAACTATGGAGAAATATAGTGCTTATTGCCGCCTAATACTATGCTGTAACAGTTCTTCAAAGGTGACTGAAGCAATCCGATCACGGTGTCTAAATGTGCGAATAAATGCACCAACAGATGAACAGATTGTTAAGGCATTGGAGTTCATTGGAAAGAAAGAAGGGCTTCAACTTCCTTCTGGATTTGCTGCTCATATAGCTGAAAAATCAAACAGGAGCTTAAGGAGAGCTATATTGTCTCTAGAAACTTGTCATGTTCAACAGTATCCCTTTACAAGTAACCAAATAATTCCCTCAATGGATTGGGAGGAATATGTTTCAGAAATTGTATCTGATATAATGAAGGAGCAGAGTCCGAAAAGGCTTTATCTGGTGCGGCAAAAGTTGTATGAGCTACTTGTTAATTGTATCCCTCCAGAGATCATTCTTAAGAGGCTGCTTTATGAGTTATTGAAGAAATTGGATGCAGAATTGAAGCATGAGGTCTGCCATTGGGCAGCATATTATGAACATAGGATGCGTCTTGGGCAGAAAGCCATATTTCACCTCGAAGCGTTCGTGGCCAAGTTCATGAGTATTTATAAGGCTTTCCTCATTGCAGCATTTGGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031390 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051338 GO:0051347 GO:0051716 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:1900262 GO:1900264 GO:1901360 GO:1901576 GO:2000112 GO:2000278 GO:2000573

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 map03030 map03420 map03430

Pfam Domains

Protein Families

DNA_pol3_delta2

Protein Analysis

389

Amino Acids

44.66

Weight (kDa)

9.32

Isoelectric Point (pI)

43.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad17	PF03215	33 - 91	7e-06	Rad17 P-loop domain
DNA_pol3_delta2	PF13177	54 - 223	2.3e-12	DNA polymerase III, delta subunit
AAA	PF00004	72 - 217	1.8e-06	ATPase family associated with various cellular activities (AAA)
RCF1-5-like_lid	PF21960	232 - 270	5.7e-10	RCF1/5-like, AAA+ ATPase lid domain
RFC_C	PF22534	288 - 377	4.3e-31	Replication factor C subunit 3, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0005462)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27740
fragaria_vesca	FvH4_1g23560 FvH4_2g04970 FvH4_2g04970 FvH4_2g04970
malus_domestica	MD04G1041000.v1.1 MD04G1041300.v1.1 MD12G1011300.v1.1
prunus_persica	Prupe.1G194700_v2.0.a1 Prupe.1G194700_v2.0.a1 Prupe.4G268900_v2.0.a1 Prupe.4G268900_v2.0.a1 Prupe.7G013300_v2.0.a1 Prupe.7G013300_v2.0.a1 Prupe.7G013300_v2.0.a1
pyrus_communis	pycom12g00880
rosa_chinensis	RchiOBHm_Chr3g0496081
rosa_laevigata	RLG00000022564
rosa_multiflora	Rmu_sc0002392.1_g000001
rosa_roxburghii	Rroxscaffold_6G00389580
rosa_rugosa	Rorug03G0279300 Rorug03G0279400 Rorug03G0279400 Rorug03G0279400 Rorug03G0279500
rosa_samantha	Rh3AG326500 Rh3BG362800 Rh3DG362200
rosa_wichuraiana	Rw3G028590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1140
AccB7I	CCANNNNNTGG	1 cut(s)	151
AccI	GTMKAC	1 cut(s)	117
AciI	CCGC	4 cut(s)	44, 77, 589, 934
AcoI	YGGCCR	1 cut(s)	1119
AcuI	CTGAAG	2 cut(s)	114, 648
AfaI	GTAC	1 cut(s)	125
AfiI	CCNNNNNNNGG	3 cut(s)	145, 151, 166
AflII	CTTAAG	2 cut(s)	778, 986
AjnI	CCWGG	1 cut(s)	144
AluBI	AGCT	6 cut(s)	41, 361, 758, 777, 788, 952
AluI	AGCT	6 cut(s)	41, 361, 758, 777, 788, 952
Alw26I	GTCTC	1 cut(s)	801
AoxI	GGCC	2 cut(s)	227, 1119
ApeKI	GCWGC	5 cut(s)	41, 746, 994, 1055, 1157
Asp700I	GAANNNNTTC	1 cut(s)	723
AspLEI	GCGC	2 cut(s)	172, 293
AspS9I	GGNCC	3 cut(s)	154, 227, 284
AsuHPI	GGTGA	3 cut(s)	313, 634, 1094
AsuII	TTCGAA	1 cut(s)	556
AvaII	GGWCC	2 cut(s)	154, 284
BalI	TGGCCA	1 cut(s)	1121
BarI	GAAGNNNNNNTAC	2 cut(s)	598, 630
BbvI	GCAGC	4 cut(s)	28, 733, 981, 1067
BceAI	ACGGC	2 cut(s)	73, 183
BcgI	CGANNNNNNTGC	2 cut(s)	536, 570
BciT130I	CCWGG	1 cut(s)	146
BciVI	GTATCC	2 cut(s)	834, 977
BcoDI	GTCTC	1 cut(s)	801
BfaI	CTAG	2 cut(s)	140, 800
BfoI	RGCGCY	1 cut(s)	294
BfrI	CTTAAG	2 cut(s)	778, 986
BfuI	GTATCC	2 cut(s)	834, 977
BisI	GCNGC	7 cut(s)	42, 589, 747, 935, 995, 1056, 1158
BlsI	GCNGC	7 cut(s)	43, 590, 748, 936, 996, 1057, 1159
Bme1390I	CCNGG	1 cut(s)	146
Bme18I	GGWCC	2 cut(s)	154, 284
BmgT120I	GGNCC	3 cut(s)	154, 227, 284
BmiI	GGNNCC	2 cut(s)	238, 286
BmrFI	CCNGG	1 cut(s)	146
BmrI	ACTGGG	1 cut(s)	396
BmsI	GCATC	5 cut(s)	96, 322, 397, 1012, 1065
BmuI	ACTGGG	1 cut(s)	396
BpmI	CTGGAG	1 cut(s)	957
Bpu14I	TTCGAA	1 cut(s)	556
BpuEI	CTTGAG	1 cut(s)	164
Bsc4I	CCNNNNNNNGG	3 cut(s)	145, 151, 166
Bse1I	ACTGG	1 cut(s)	402
Bse3DI	GCAATG	3 cut(s)	156, 258, 1152
BseBI	CCWGG	1 cut(s)	146
BseGI	GGATG	2 cut(s)	1027, 1080
BseLI	CCNNNNNNNGG	3 cut(s)	145, 151, 166
BseMI	GCAATG	3 cut(s)	156, 258, 1152
BseNI	ACTGG	1 cut(s)	402
BseXI	GCAGC	4 cut(s)	28, 733, 981, 1067
BseYI	CCCAGC	2 cut(s)	287, 335
BshFI	GGCC	2 cut(s)	229, 1121
BsiSI	CCGG	2 cut(s)	234, 240
BslI	CCNNNNNNNGG	3 cut(s)	145, 151, 166
BsmAI	GTCTC	1 cut(s)	801
BsmI	GAATGC	1 cut(s)	547
BsnI	GGCC	2 cut(s)	229, 1121
Bsp119I	TTCGAA	1 cut(s)	556
Bsp143I	GATC	2 cut(s)	638, 978
BspACI	CCGC	4 cut(s)	44, 77, 589, 934
BspANI	GGCC	2 cut(s)	229, 1121
BspHI	TCATGA	1 cut(s)	1128
BspLI	GGNNCC	2 cut(s)	238, 286
BspT104I	TTCGAA	1 cut(s)	556
BspTI	CTTAAG	2 cut(s)	778, 986
BsrDI	GCAATG	3 cut(s)	156, 258, 1152
BsrI	ACTGG	1 cut(s)	402
BssMI	GATC	2 cut(s)	638, 978
Bst2UI	CCWGG	1 cut(s)	146
Bst4CI	ACNGT	3 cut(s)	611, 645, 822
Bst6I	CTCTTC	1 cut(s)	558
BstAFI	CTTAAG	2 cut(s)	778, 986
BstBI	TTCGAA	1 cut(s)	556
BstC8I	GCNNGC	1 cut(s)	412
BstENI	CCTNNNNNAGG	1 cut(s)	143
BstF5I	GGATG	2 cut(s)	1027, 1080
BstH2I	RGCGCY	1 cut(s)	294
BstHHI	GCGC	2 cut(s)	172, 293
BstKTI	GATC	2 cut(s)	641, 981
BstMAI	GTCTC	1 cut(s)	801
BstMBI	GATC	2 cut(s)	638, 978
BstMWI	GCNNNNNNNGC	4 cut(s)	85, 755, 1084, 1118
BstNI	CCWGG	1 cut(s)	146
BstSCI	CCNGG	1 cut(s)	144
BstV1I	GCAGC	4 cut(s)	28, 733, 981, 1067
BsuI	GTATCC	2 cut(s)	834, 977
BsuRI	GGCC	2 cut(s)	229, 1121
BtsCI	GGATG	2 cut(s)	1027, 1080
BtsIMutI	CAGTG	1 cut(s)	409
Cac8I	GCNNGC	1 cut(s)	412
CciI	TCATGA	1 cut(s)	1128
CfoI	GCGC	2 cut(s)	172, 293
Cfr13I	GGNCC	3 cut(s)	154, 227, 284
CseI	GACGC	1 cut(s)	1067
Csp6I	GTAC	1 cut(s)	124
CviAII	CATG	4 cut(s)	321, 812, 1037, 1129
CviQI	GTAC	1 cut(s)	124
DpnI	GATC	2 cut(s)	640, 980
DpnII	GATC	2 cut(s)	638, 978
EaeI	YGGCCR	1 cut(s)	1119
Eam1104I	CTCTTC	1 cut(s)	558
EarI	CTCTTC	1 cut(s)	558
Eco47I	GGWCC	2 cut(s)	154, 284
Eco57I	CTGAAG	2 cut(s)	114, 648
EcoNI	CCTNNNNNAGG	1 cut(s)	143
EcoRII	CCWGG	1 cut(s)	144
FaeI	CATG	4 cut(s)	324, 815, 1040, 1132
FalI	AAGNNNNNCTT	2 cut(s)	708, 740
FatI	CATG	4 cut(s)	320, 811, 1036, 1128
FauI	CCCGC	2 cut(s)	37, 84
FblI	GTMKAC	1 cut(s)	117
Fnu4HI	GCNGC	7 cut(s)	42, 589, 747, 935, 995, 1056, 1158
FokI	GGATG	2 cut(s)	1034, 1087
Fsp4HI	GCNGC	7 cut(s)	42, 589, 747, 935, 995, 1056, 1158
FspBI	CTAG	2 cut(s)	140, 800
GlaI	GCGC	2 cut(s)	171, 292
GluI	GCNGC	7 cut(s)	42, 589, 747, 935, 995, 1056, 1158
GsaI	CCCAGC	2 cut(s)	291, 339
GsuI	CTGGAG	1 cut(s)	957
HaeII	RGCGCY	1 cut(s)	294
HaeIII	GGCC	2 cut(s)	229, 1121
HapII	CCGG	2 cut(s)	234, 240
HgaI	GACGC	1 cut(s)	1067
HhaI	GCGC	2 cut(s)	172, 293
Hin1II	CATG	4 cut(s)	324, 815, 1040, 1132
Hin6I	GCGC	2 cut(s)	170, 291
HinP1I	GCGC	2 cut(s)	170, 291
HincII	GTYRAC	1 cut(s)	523
HindII	GTYRAC	1 cut(s)	523
HinfI	GANTC	4 cut(s)	18, 63, 98, 910
HpaII	CCGG	2 cut(s)	234, 240
HphI	GGTGA	3 cut(s)	313, 634, 1094
Hpy166II	GTNNAC	4 cut(s)	67, 118, 157, 523
Hpy188I	TCNGA	8 cut(s)	23, 94, 276, 284, 638, 880, 892, 915
Hpy188III	TCNNGA	8 cut(s)	181, 419, 437, 534, 738, 800, 974, 1129
Hpy8I	GTNNAC	4 cut(s)	67, 118, 157, 523
HpyAV	CCTTC	5 cut(s)	240, 298, 713, 744, 895
HpyCH4III	ACNGT	3 cut(s)	611, 645, 822
HpyCH4V	TGCA	4 cut(s)	410, 668, 1025, 1157
HpyF10VI	GCNNNNNNNGC	4 cut(s)	85, 755, 1084, 1118
Hsp92II	CATG	4 cut(s)	324, 815, 1040, 1132
HspAI	GCGC	2 cut(s)	170, 291
Kzo9I	GATC	2 cut(s)	638, 978
LmnI	GCTCC	3 cut(s)	242, 774, 904
Lsp1109I	GCAGC	4 cut(s)	28, 733, 981, 1067
LweI	GCATC	5 cut(s)	96, 322, 397, 1012, 1065
MaeI	CTAG	2 cut(s)	140, 800
MaeIII	GTNAC	3 cut(s)	605, 622, 836
MalI	GATC	2 cut(s)	640, 980
MboI	GATC	2 cut(s)	638, 978
MboII	GAAGA	6 cut(s)	107, 115, 545, 570, 606, 1024
MlsI	TGGCCA	1 cut(s)	1121
MluCI	AATT	7 cut(s)	24, 444, 846, 882, 961, 1016, 1028
MluNI	TGGCCA	1 cut(s)	1121
MlyI	GAGTC	2 cut(s)	72, 919
Mox20I	TGGCCA	1 cut(s)	1121
MroXI	GAANNNNTTC	1 cut(s)	723
MscI	TGGCCA	1 cut(s)	1121
MseI	TTAA	5 cut(s)	447, 690, 779, 960, 987
Msp20I	TGGCCA	1 cut(s)	1121
MspCI	CTTAAG	2 cut(s)	778, 986
MspI	CCGG	2 cut(s)	234, 240
MspR9I	CCNGG	1 cut(s)	146
Mva1269I	GAATGC	1 cut(s)	547
MvaI	CCWGG	1 cut(s)	146
MwoI	GCNNNNNNNGC	4 cut(s)	85, 755, 1084, 1118
NdeII	GATC	2 cut(s)	638, 978
NlaIII	CATG	4 cut(s)	324, 815, 1040, 1132
NlaIV	GGNNCC	2 cut(s)	238, 286
NmuCI	GTSAC	1 cut(s)	622
NspV	TTCGAA	1 cut(s)	556
PagI	TCATGA	1 cut(s)	1128
PcsI	WCGNNNNNNNCGW	1 cut(s)	1113
PctI	GAATGC	1 cut(s)	547
PdmI	GAANNNNTTC	1 cut(s)	723
PfeI	GAWTC	2 cut(s)	18, 98
PflMI	CCANNNNNTGG	1 cut(s)	151
PkrI	GCNGC	7 cut(s)	43, 590, 748, 936, 996, 1057, 1159
PleI	GAGTC	2 cut(s)	71, 918
PpsI	GAGTC	2 cut(s)	71, 918
PsiI	TTATAA	1 cut(s)	1140
Psp6I	CCWGG	1 cut(s)	144
PspFI	CCCAGC	2 cut(s)	287, 335
PspGI	CCWGG	1 cut(s)	144
PspN4I	GGNNCC	2 cut(s)	238, 286
PspPI	GGNCC	3 cut(s)	154, 227, 284
RsaI	GTAC	1 cut(s)	125
RsaNI	GTAC	1 cut(s)	124
SaqAI	TTAA	5 cut(s)	447, 690, 779, 960, 987
SatI	GCNGC	7 cut(s)	42, 589, 747, 935, 995, 1056, 1158
Sau3AI	GATC	2 cut(s)	638, 978
Sau96I	GGNCC	3 cut(s)	154, 227, 284
SchI	GAGTC	2 cut(s)	72, 919
ScrFI	CCNGG	1 cut(s)	146
SfaNI	GCATC	5 cut(s)	96, 322, 397, 1012, 1065
SfuI	TTCGAA	1 cut(s)	556
SinI	GGWCC	2 cut(s)	154, 284
SmlI	CTYRAG	3 cut(s)	179, 778, 986
SmoI	CTYRAG	3 cut(s)	179, 778, 986
Sse9I	AATT	7 cut(s)	24, 444, 846, 882, 961, 1016, 1028
SsiI	CCGC	4 cut(s)	44, 77, 589, 934
SspMI	CTAG	2 cut(s)	140, 800
StyD4I	CCNGG	1 cut(s)	144
TaaI	ACNGT	3 cut(s)	611, 645, 822
TaqI	TCGA	3 cut(s)	101, 556, 1107
TasI	AATT	7 cut(s)	24, 444, 846, 882, 961, 1016, 1028
TatI	WGTACW	1 cut(s)	123
TauI	GCSGC	2 cut(s)	591, 937
TfiI	GAWTC	2 cut(s)	18, 98
Tru1I	TTAA	5 cut(s)	447, 690, 779, 960, 987
Tru9I	TTAA	5 cut(s)	447, 690, 779, 960, 987
TscAI	CASTG	1 cut(s)	409
TseFI	GTSAC	1 cut(s)	622
TseI	GCWGC	5 cut(s)	41, 746, 994, 1055, 1157
Tsp45I	GTSAC	1 cut(s)	622
TspDTI	ATGAA	7 cut(s)	17, 531, 693, 694, 914, 1080, 1117
TspRI	CASTG	1 cut(s)	409
Van91I	CCANNNNNTGG	1 cut(s)	151
Vha464I	CTTAAG	2 cut(s)	778, 986
VpaK11BI	GGWCC	2 cut(s)	154, 284
XagI	CCTNNNNNAGG	1 cut(s)	143
XbaI	TCTAGA	1 cut(s)	799
XmiI	GTMKAC	1 cut(s)	117
XmnI	GAANNNNTTC	1 cut(s)	723
XspI	CTAG	2 cut(s)	140, 800

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.