Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003782

Physical Location & Seq

Genomic Coordinates Forward (+)

78826049 .. 78828720

Gene Structure 2672 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG561800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGTTGGACCAGTTGAGTTTGCTGGGGAAAAGAATTTCAACATCTCTTGTGAATGAACTTGTGGGAGTTGTTTCCGATGACAAGTTACTAGATCTTTTGGAGTTAGCAATGTCATCAGACACTGCAGAAACAGTGAAAAGGGCCAGAGATTTGATGGACTCTGGGGTTGATCCCATGGTTTTGATGTCTCAGTTGGCCAGCTTAATTATGGACATCATTGCGGGAACCAACGGTACTAATGATGTCAAACATGACTCCTTATATGGTGCTCGGAACTTGACCGAAGGAGAATTGGAGAGATTAAAACATGCTCTGAAGATTCTTTCGGAGGCTGAAAAGCAGCTTAGGGTTTCAAGTGAGCGCTCAACATGGTTTACAGCTACTCTGTTGCAGCTTGGTTCAGTGCCTTCTCCAGACCTTAGTCACTCATGCAGCAGGAGGCATAGCTGCAAGACAACTGAGGATGACTCTTCAAGTGCTTCAACTTCAAGAGAAGCAGCCACTTACAAACAGAAGTTAGATGGTCACTATATACTACAAAAATCAACTCAACATGCTTCTGTACAAAGAGCACCAAATGACAATTCCAACCATCAAGGAGATTCGTTGTCAAGAAATAATGGTTTCGGTGTGAATACCAAGCCCTCACATGATCAGTTTGTGGATAATGGGGCCTCGACTCCCTTGTGTGGAAATGTTATGGCTGGAAATATGAGCCTTAGATGTGTAAACTCTGAAAAGTTAAATGATGTATGGGCACAGTGTATTGAGAAGTGTCATTCAAAGACATTGAGGCAGCTACTACATTCTCATGGAAAGCTACTGTCTATATCTGAAGCTGAAGAACGTTATGGATCGAAATTAACATCTGAGGAGCTCCTGGAGTTTGATGCGCTGACAGATGACTATGAAGTCAGCTGGCATGTGAAGCATCTTAGAAGTTTATTGAGTCCGACATCGGATGAATTGAAATCAAGGGCAGTTCAAGTGAAGAACCGGAGGCGAGCCTACCTGAATAAGTTGATATTTGATGGGCAATATTTCTCGGAGGATTCAATGAGGGAGGGAGAGCCCTACTTGCATCATGAGTATGTGGGGAAGTTTCAGGTTCCGAGTTGTAGGAGCATGGCAAGACCAGGGGAGCGGTGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0000904 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0005886 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009888 GO:0009987 GO:0010026 GO:0010090 GO:0010091 GO:0016020 GO:0016043 GO:0030154 GO:0032502 GO:0032989 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0046483 GO:0048468 GO:0048856 GO:0048869 GO:0050896 GO:0051716 GO:0071704 GO:0071840 GO:0071944 GO:0090304 GO:0090558 GO:0090626 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_pol3_delta2 DNA_pol3_gamma3

Protein Analysis

383

Amino Acids

42.78

Weight (kDa)

6.21

Isoelectric Point (pI)

47.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol3_gamma3	PF12169	13 - 134	5.1e-09	DNA polymerase III subunits gamma and tau domain III
DnaA_N-like_STI	PF23007	241 - 282	2e-13	STICHEL, DnaA_N-like alpha-beta domain
CCD97-like_C	PF09747	332 - 380	8.4e-15	Coiled-coil domain containing protein 97-like, C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003782)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14460 AT2G02480 AT2G02480
fragaria_vesca	FvH4_5g27450 FvH4_5g27450
malus_domestica	MD08G1249500.v1.1
prunus_persica	Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1 Prupe.1G586700_v2.0.a1
pyrus_communis	pycom08g21590
rosa_chinensis	RchiOBHm_Chr2g0146641 RchiOBHm_Chr7g0218871
rosa_laevigata	RLG00000001635 RLG00000002346 RLG00000002355
rosa_multiflora	Rmu_sc0003823.1_g000001 Rmu_sc0006998.1_g000001
rosa_roxburghii	Rroxscaffold_3G00240440
rosa_rugosa	Rorug07G0179300
rosa_samantha	Rh3AG021300 Rh3CG020600 Rh5BG537900 Rh5CG561800 Rh7AG322600 Rh7BG313700 Rh7CG339400 Rh7DG319800 Rh7DG389400
rosa_wichuraiana	Rw5G027500 Rw7G026930 Rw7G027310 Rw7G028430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	911
AccBSI	CCGCTC	1 cut(s)	1144
AciI	CCGC	2 cut(s)	221, 1144
AclI	AACGTT	1 cut(s)	847
AclWI	GGATC	2 cut(s)	164, 862
AcoI	YGGCCR	1 cut(s)	195
AcsI	RAATTY	1 cut(s)	33
AcuI	CTGAAG	3 cut(s)	335, 855, 861
AfaI	GTAC	2 cut(s)	235, 564
AfeI	AGCGCT	1 cut(s)	362
AfiI	CCNNNNNNNGG	1 cut(s)	689
AgsI	TTSAA	9 cut(s)	39, 354, 474, 483, 489, 783, 970, 986, 1056
AjnI	CCWGG	2 cut(s)	879, 1135
AjuI	GAANNNNNNNTTGG	2 cut(s)	568, 600
Alw21I	GWGCWC	3 cut(s)	271, 574, 879
Alw26I	GTCTC	1 cut(s)	192
AlwI	GGATC	2 cut(s)	164, 862
AlwNI	CAGNNNCTG	1 cut(s)	122
Aor51HI	AGCGCT	1 cut(s)	362
AoxI	GGCC	3 cut(s)	141, 195, 672
ApeKI	GCWGC	6 cut(s)	340, 391, 432, 447, 497, 796
ApoI	RAATTY	1 cut(s)	33
AspLEI	GCGC	2 cut(s)	363, 895
AspS9I	GGNCC	3 cut(s)	7, 141, 672
AvaII	GGWCC	1 cut(s)	7
BaeGI	GKGCMC	1 cut(s)	760
BalI	TGGCCA	1 cut(s)	197
BanII	GRGCYC	2 cut(s)	879, 1074
Bbv12I	GWGCWC	3 cut(s)	271, 574, 879
BbvI	GCAGC	6 cut(s)	352, 403, 434, 444, 509, 808
BccI	CCATC	4 cut(s)	148, 515, 600, 1025
BciT130I	CCWGG	2 cut(s)	881, 1137
BclI	TGATCA	1 cut(s)	652
BcoDI	GTCTC	1 cut(s)	192
BfaI	CTAG	1 cut(s)	89
BfmI	CTRYAG	1 cut(s)	123
BfoI	RGCGCY	1 cut(s)	364
BglII	AGATCT	1 cut(s)	91
BisI	GCNGC	6 cut(s)	341, 392, 433, 448, 498, 797
BlsI	GCNGC	6 cut(s)	342, 393, 434, 449, 499, 798
Bme1390I	CCNGG	2 cut(s)	881, 1137
Bme18I	GGWCC	1 cut(s)	7
BmgT120I	GGNCC	3 cut(s)	7, 141, 672
BmiI	GGNNCC	3 cut(s)	226, 673, 1110
BmrFI	CCNGG	2 cut(s)	881, 1137
BmsI	GCATC	3 cut(s)	880, 940, 1090
BoxI	GACNNNNGTC	1 cut(s)	420
BplI	GAGNNNNNCTC	2 cut(s)	452, 484
BpmI	CTGGAG	2 cut(s)	396, 902
Bpu10I	CCTNAGC	1 cut(s)	344
BsaJI	CCNNGG	2 cut(s)	174, 1136
BsaWI	WCCGGW	1 cut(s)	996
BsaXI	ACNNNNNCTCC	1 cut(s)	1133
Bsc4I	CCNNNNNNNGG	1 cut(s)	689
Bse1I	ACTGG	1 cut(s)	10
Bse3DI	GCAATG	2 cut(s)	114, 216
BseBI	CCWGG	2 cut(s)	881, 1137
BseDI	CCNNGG	2 cut(s)	174, 1136
BseGI	GGATG	2 cut(s)	469, 967
BseLI	CCNNNNNNNGG	1 cut(s)	689
BseMI	GCAATG	2 cut(s)	114, 216
BseMII	CTCAG	3 cut(s)	203, 450, 861
BseNI	ACTGG	1 cut(s)	10
BseRI	GAGGAG	1 cut(s)	887
BseSI	GKGCMC	1 cut(s)	760
BseXI	GCAGC	6 cut(s)	352, 403, 434, 444, 509, 808
BseYI	CCCAGC	1 cut(s)	22
BshFI	GGCC	3 cut(s)	143, 197, 674
BsiHKAI	GWGCWC	3 cut(s)	271, 574, 879
BsiSI	CCGG	1 cut(s)	997
BslI	CCNNNNNNNGG	1 cut(s)	689
BsmAI	GTCTC	1 cut(s)	192
BsnI	GGCC	3 cut(s)	143, 197, 674
Bsp1286I	GDGCHC	5 cut(s)	271, 574, 760, 879, 1074
Bsp1407I	TGTACA	1 cut(s)	562
Bsp143I	GATC	4 cut(s)	91, 169, 652, 854
Bsp19I	CCATGG	1 cut(s)	174
BspACI	CCGC	2 cut(s)	221, 1144
BspANI	GGCC	3 cut(s)	143, 197, 674
BspCNI	CTCAG	3 cut(s)	202, 451, 862
BspHI	TCATGA	1 cut(s)	1084
BspLI	GGNNCC	3 cut(s)	226, 673, 1110
BspMAI	CTGCAG	1 cut(s)	127
BspPI	GGATC	2 cut(s)	164, 862
BsrBI	CCGCTC	1 cut(s)	1144
BsrDI	GCAATG	2 cut(s)	114, 216
BsrGI	TGTACA	1 cut(s)	562
BsrI	ACTGG	1 cut(s)	10
BssECI	CCNNGG	2 cut(s)	174, 1136
BssMI	GATC	4 cut(s)	91, 169, 652, 854
BssT1I	CCWWGG	1 cut(s)	174
Bst2UI	CCWGG	2 cut(s)	881, 1137
Bst4CI	ACNGT	4 cut(s)	133, 233, 762, 825
Bst6I	CTCTTC	1 cut(s)	475
BstAUI	TGTACA	1 cut(s)	562
BstC8I	GCNNGC	3 cut(s)	199, 920, 1005
BstDEI	CTNAG	7 cut(s)	189, 344, 419, 459, 719, 870, 935
BstDSI	CCRYGG	1 cut(s)	174
BstF5I	GGATG	2 cut(s)	469, 967
BstH2I	RGCGCY	1 cut(s)	364
BstHHI	GCGC	2 cut(s)	363, 895
BstKTI	GATC	4 cut(s)	94, 172, 655, 857
BstMAI	GTCTC	1 cut(s)	192
BstMBI	GATC	4 cut(s)	91, 169, 652, 854
BstMWI	GCNNNNNNNGC	2 cut(s)	928, 1078
BstNI	CCWGG	2 cut(s)	881, 1137
BstNSI	RCATGY	3 cut(s)	311, 557, 926
BstPAI	GACNNNNGTC	1 cut(s)	420
BstSCI	CCNGG	2 cut(s)	879, 1135
BstSFI	CTRYAG	1 cut(s)	123
BstSLI	GKGCMC	1 cut(s)	760
BstV1I	GCAGC	6 cut(s)	352, 403, 434, 444, 509, 808
BstX2I	RGATCY	1 cut(s)	91
BstYI	RGATCY	1 cut(s)	91
BsuRI	GGCC	3 cut(s)	143, 197, 674
BtgI	CCRYGG	1 cut(s)	174
BtsCI	GGATG	2 cut(s)	469, 967
BtsI	GCAGTG	1 cut(s)	120
BtsIMutI	CAGTG	4 cut(s)	120, 138, 408, 767
Cac8I	GCNNGC	3 cut(s)	199, 920, 1005
CaiI	CAGNNNCTG	1 cut(s)	122
CciI	TCATGA	1 cut(s)	1084
CfoI	GCGC	2 cut(s)	363, 895
Cfr13I	GGNCC	3 cut(s)	7, 141, 672
Csp6I	GTAC	2 cut(s)	234, 563
CviQI	GTAC	2 cut(s)	234, 563
DdeI	CTNAG	7 cut(s)	189, 344, 419, 459, 719, 870, 935
DpnI	GATC	4 cut(s)	93, 171, 654, 856
DpnII	GATC	4 cut(s)	91, 169, 652, 854
DrdI	GACNNNNNNGTC	1 cut(s)	911
DseDI	GACNNNNNNGTC	1 cut(s)	911
EaeI	YGGCCR	1 cut(s)	195
Eam1104I	CTCTTC	1 cut(s)	475
EarI	CTCTTC	1 cut(s)	475
Ecl136II	GAGCTC	1 cut(s)	877
Eco130I	CCWWGG	1 cut(s)	174
Eco24I	GRGCYC	2 cut(s)	879, 1074
Eco47I	GGWCC	1 cut(s)	7
Eco47III	AGCGCT	1 cut(s)	362
Eco53kI	GAGCTC	1 cut(s)	877
Eco57I	CTGAAG	3 cut(s)	335, 855, 861
EcoICRI	GAGCTC	1 cut(s)	877
EcoO109I	RGGNCCY	1 cut(s)	672
EcoRII	CCWGG	2 cut(s)	879, 1135
EcoT14I	CCWWGG	1 cut(s)	174
EcoT38I	GRGCYC	2 cut(s)	879, 1074
ErhI	CCWWGG	1 cut(s)	174
FauI	CCCGC	1 cut(s)	214
FbaI	TGATCA	1 cut(s)	652
Fnu4HI	GCNGC	6 cut(s)	341, 392, 433, 448, 498, 797
FokI	GGATG	2 cut(s)	476, 974
FriOI	GRGCYC	2 cut(s)	879, 1074
Fsp4HI	GCNGC	6 cut(s)	341, 392, 433, 448, 498, 797
FspBI	CTAG	1 cut(s)	89
GlaI	GCGC	2 cut(s)	362, 894
GluI	GCNGC	6 cut(s)	341, 392, 433, 448, 498, 797
GsaI	CCCAGC	1 cut(s)	26
GsuI	CTGGAG	2 cut(s)	396, 902
HaeII	RGCGCY	1 cut(s)	364
HaeIII	GGCC	3 cut(s)	143, 197, 674
HapII	CCGG	1 cut(s)	997
HhaI	GCGC	2 cut(s)	363, 895
Hin6I	GCGC	2 cut(s)	361, 893
HinP1I	GCGC	2 cut(s)	361, 893
HinfI	GANTC	8 cut(s)	158, 254, 319, 467, 602, 679, 949, 1052
HpaII	CCGG	1 cut(s)	997
Hpy166II	GTNNAC	2 cut(s)	375, 730
Hpy188III	TCNNGA	4 cut(s)	413, 489, 612, 1085
Hpy8I	GTNNAC	2 cut(s)	375, 730
HpyAV	CCTTC	2 cut(s)	278, 417
HpyCH4III	ACNGT	4 cut(s)	133, 233, 762, 825
HpyCH4IV	ACGT	1 cut(s)	847
HpyCH4V	TGCA	5 cut(s)	125, 391, 432, 450, 1081
HpyF10VI	GCNNNNNNNGC	2 cut(s)	928, 1078
HpyF3I	CTNAG	7 cut(s)	189, 344, 419, 459, 719, 870, 935
HpySE526I	ACGT	1 cut(s)	847
HspAI	GCGC	2 cut(s)	361, 893
Ksp22I	TGATCA	1 cut(s)	652
Kzo9I	GATC	4 cut(s)	91, 169, 652, 854
LmnI	GCTCC	4 cut(s)	874, 882, 1122, 1141
Lsp1109I	GCAGC	6 cut(s)	352, 403, 434, 444, 509, 808
LweI	GCATC	3 cut(s)	880, 940, 1090
MaeI	CTAG	1 cut(s)	89
MaeII	ACGT	1 cut(s)	847
MaeIII	GTNAC	3 cut(s)	84, 422, 524
MalI	GATC	4 cut(s)	93, 171, 654, 856
MbiI	CCGCTC	1 cut(s)	1144
MboI	GATC	4 cut(s)	91, 169, 652, 854
MboII	GAAGA	4 cut(s)	328, 462, 854, 1003
MflI	RGATCY	1 cut(s)	91
MhlI	GDGCHC	5 cut(s)	271, 574, 760, 879, 1074
MlsI	TGGCCA	1 cut(s)	197
MluCI	AATT	6 cut(s)	33, 204, 290, 583, 860, 965
MluNI	TGGCCA	1 cut(s)	197
MlyI	GAGTC	5 cut(s)	152, 248, 461, 673, 958
MmeI	TCCRAC	2 cut(s)	612, 977
Mox20I	TGGCCA	1 cut(s)	197
MscI	TGGCCA	1 cut(s)	197
MseI	TTAA	4 cut(s)	203, 302, 743, 863
MslI	CAYNNNNRTG	2 cut(s)	810, 1089
Msp20I	TGGCCA	1 cut(s)	197
MspA1I	CMGCKG	1 cut(s)	918
MspI	CCGG	1 cut(s)	997
MspR9I	CCNGG	2 cut(s)	881, 1137
MvaI	CCWGG	2 cut(s)	881, 1137
MwoI	GCNNNNNNNGC	2 cut(s)	928, 1078
NcoI	CCATGG	1 cut(s)	174
NdeII	GATC	4 cut(s)	91, 169, 652, 854
NlaIV	GGNNCC	3 cut(s)	226, 673, 1110
NmuCI	GTSAC	2 cut(s)	422, 524
NspI	RCATGY	3 cut(s)	311, 557, 926
PagI	TCATGA	1 cut(s)	1084
PfeI	GAWTC	3 cut(s)	319, 602, 1052
PfoI	TCCNGGA	1 cut(s)	879
PkrI	GCNGC	6 cut(s)	342, 393, 434, 449, 499, 798
PleI	GAGTC	5 cut(s)	152, 248, 461, 673, 957
PpsI	GAGTC	5 cut(s)	152, 248, 461, 673, 957
PshAI	GACNNNNGTC	1 cut(s)	420
Psp124BI	GAGCTC	1 cut(s)	879
Psp1406I	AACGTT	1 cut(s)	847
Psp6I	CCWGG	2 cut(s)	879, 1135
PspFI	CCCAGC	1 cut(s)	22
PspGI	CCWGG	2 cut(s)	879, 1135
PspN4I	GGNNCC	3 cut(s)	226, 673, 1110
PspPI	GGNCC	3 cut(s)	7, 141, 672
PsrI	GAACNNNNNNTAC	2 cut(s)	217, 249
PstI	CTGCAG	1 cut(s)	127
PstNI	CAGNNNCTG	1 cut(s)	122
PsuI	RGATCY	1 cut(s)	91
PvuII	CAGCTG	1 cut(s)	918
RsaI	GTAC	2 cut(s)	235, 564
RsaNI	GTAC	2 cut(s)	234, 563
RseI	CAYNNNNRTG	2 cut(s)	810, 1089
SacI	GAGCTC	1 cut(s)	879
SaqAI	TTAA	4 cut(s)	203, 302, 743, 863
SatI	GCNGC	6 cut(s)	341, 392, 433, 448, 498, 797
Sau3AI	GATC	4 cut(s)	91, 169, 652, 854
Sau96I	GGNCC	3 cut(s)	7, 141, 672
SchI	GAGTC	5 cut(s)	152, 248, 461, 673, 958
ScrFI	CCNGG	2 cut(s)	881, 1137
SduI	GDGCHC	5 cut(s)	271, 574, 760, 879, 1074
SfaNI	GCATC	3 cut(s)	880, 940, 1090
SfcI	CTRYAG	1 cut(s)	123
SinI	GGWCC	1 cut(s)	7
SmiMI	CAYNNNNRTG	2 cut(s)	810, 1089
Sse9I	AATT	6 cut(s)	33, 204, 290, 583, 860, 965
SsiI	CCGC	2 cut(s)	221, 1144
SspI	AATATT	1 cut(s)	1040
SspMI	CTAG	1 cut(s)	89
SstI	GAGCTC	1 cut(s)	879
StyD4I	CCNGG	2 cut(s)	879, 1135
StyI	CCWWGG	1 cut(s)	174
TaaI	ACNGT	4 cut(s)	133, 233, 762, 825
TaiI	ACGT	1 cut(s)	850
TaqI	TCGA	2 cut(s)	677, 857
TaqII	GACCGA	1 cut(s)	296
TasI	AATT	6 cut(s)	33, 204, 290, 583, 860, 965
TatI	WGTACW	1 cut(s)	562
TfiI	GAWTC	3 cut(s)	319, 602, 1052
Tru1I	TTAA	4 cut(s)	203, 302, 743, 863
Tru9I	TTAA	4 cut(s)	203, 302, 743, 863
TscAI	CASTG	4 cut(s)	127, 138, 408, 767
TseFI	GTSAC	2 cut(s)	422, 524
TseI	GCWGC	6 cut(s)	340, 391, 432, 447, 497, 796
Tsp45I	GTSAC	2 cut(s)	422, 524
TspDTI	ATGAA	3 cut(s)	69, 924, 978
TspRI	CASTG	4 cut(s)	127, 138, 408, 767
VpaK11BI	GGWCC	1 cut(s)	7
XapI	RAATTY	1 cut(s)	33
XceI	RCATGY	3 cut(s)	311, 557, 926
XcmI	CCANNNNNNNNNTGG	3 cut(s)	151, 205, 1143
XspI	CTAG	1 cut(s)	89

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