Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0004762

Physical Location & Seq

Genomic Coordinates Reverse (-)

71266980 .. 71269212

Gene Structure 2233 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG413800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1083 bp

ATGCTCTGGTGTGTTCCTAAGACACGCGTCCTCCACCGATCAGGATTGCTGATCAGAAGTAAAACAGTAAAAATGACTTCGCCTTTGTTGCACAACCGAAACCAAGTAATGGCGCCAAAAAAGGCAACCAGAGATGAAAGTCCTCCACCGTCCGATCCTCACGGAATCTTCGCCGGAATGGTCGTCTTCTTAGTCGAAGACGGAGTTCAGAACCGTCGCTTACAGGTTTGGAAGCAAAAACTGGTTCAAATGGGAGCTACTATAGAAGACCATCTATCCAAAAGGGTCACACACATATTTGCTATGAACCCAGAAGCCCTTTTGCAAAAAGTGGGCAGTGATCAACGGGGTCTCTTTAAAGGAAGAGTTGTACTCTATCAGTGGCTAGAGGACAGCTTGAGCTCAGGGAAGAGAGTACCAGAAGATTTGTACCATCTGAAATTGGAGTCAGATAAGTCTTCTAGTGATTACATTTCCAGTGATGAAGAAACCCCAAAACTGAAAAGGCGAAGATCCTCATCTCCTGATGAGTTGCCTCATACTCCCAGCCCCAAAACCCCTAAAGCCCCAAATAAGGATCAGGTCACAGCATTGCAGTCATCCACGCCCTACAACCCACCTGATTTAAACAAAGACATAACCCAGATATTTGGGAAGCTTATCAACATATATAGAGGTGAGGAGTTAACCGTAGTCTACTTAGAGAGGTTAAATTTTAGTTCATATCGTGGGAGAGTACATGTTCCTGTCCATGGACTGATTCAAGAGATAGTGACTACCGGAAAGCTATCCAAGTTGGAGCACTTTGAAACAGATGAAAAGGTAAAAACAATCAGCTTATTCGAGGAAATATGGGGTGTAGGTCCAGCTACTGCACTAAAATTATTTGAGAAAGGACATCACACATTAGATGATTTGAAGAATGAAGATTCGTTGACACATTCACAGAAGTTGGGGTTAAGATATTATGAGGATATCAAACAGAGGATCCCACGGCATGAGGCTCAAGAGATGGAACTTCTTCTACAAAAAGCGGCAGAGGATGTTTTGCCTGGGGTGAGCACAATAATGTTAAATACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006284 GO:0006285 GO:0006287 GO:0006289 GO:0006302 GO:0006303 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010224 GO:0016740 GO:0016772 GO:0016779 GO:0016829 GO:0016835 GO:0018130 GO:0019438 GO:0030145 GO:0033554 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043167 GO:0043169 GO:0043170 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0046483 GO:0046872 GO:0046914 GO:0050896 GO:0051575 GO:0051716 GO:0071704 GO:0071897 GO:0090304 GO:0097510 GO:0140097 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03410 ko03450 map03410 map03450

Pfam Domains

Protein Families

BRCT DNA_pol_B_palm DNA_pol_B_thumb DNA_pol_lambd_f HHH_8 LIM

Protein Analysis

360

Amino Acids

40.96

Weight (kDa)

8.99

Isoelectric Point (pI)

51.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_lambd_f	PF10391	280 - 326	5.1e-19	Fingers domain of DNA polymerase lambda

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

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Publication-ready

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Orthologous Genes (Group: OG0004762)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10520 AT1G10520
fragaria_vesca	FvH4_4g35010 FvH4_4g35030
malus_domestica	MD16G1086600.v1.1 MD16G1086700.v1.1
prunus_persica	Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1
pyrus_communis	pycom16g07470
rosa_chinensis	RchiOBHm_Chr4g0444541 RchiOBHm_Chr4g0444551
rosa_laevigata	RLG00000005822 RLG00000005825
rosa_multiflora	Rmu_sc0003839.1_g000005 Rmu_sc0012648.1_g000007
rosa_roxburghii	Rroxscaffold_5G00385000 Rroxscaffold_5G00385010
rosa_rugosa	Rorug04G0353500 Rorug04G0353600 Rorug04G0353700 Rorug04G0353800
rosa_samantha	Rh4AG413800 Rh4BG425500 Rh4CG439900 Rh4CG440200 Rh4DG420800 Rh4DG421100
rosa_wichuraiana	Rw4G035540 Rw4G035550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	112
AccB7I	CCANNNNNTGG	1 cut(s)	109
AccI	GTMKAC	1 cut(s)	696
AccII	CGCG	1 cut(s)	27
AciI	CCGC	1 cut(s)	1034
AclWI	GGATC	5 cut(s)	149, 507, 585, 982, 995
AcsI	RAATTY	1 cut(s)	712
AcyI	GRCGYC	1 cut(s)	113
AfaI	GTAC	4 cut(s)	372, 417, 431, 738
AfiI	CCNNNNNNNGG	3 cut(s)	109, 574, 752
AflIII	ACRYGT	2 cut(s)	25, 739
AgsI	TTSAA	4 cut(s)	248, 764, 809, 919
AjnI	CCWGG	1 cut(s)	1051
AluBI	AGCT	7 cut(s)	257, 396, 402, 658, 787, 837, 869
AluI	AGCT	7 cut(s)	257, 396, 402, 658, 787, 837, 869
Alw21I	GWGCWC	3 cut(s)	404, 804, 1064
Alw26I	GTCTC	1 cut(s)	356
AlwI	GGATC	5 cut(s)	149, 507, 585, 982, 995
AlwNI	CAGNNNCTG	1 cut(s)	872
ApoI	RAATTY	1 cut(s)	712
ArsI	GACNNNNNNTTYG	2 cut(s)	67, 99
Asp700I	GAANNNNTTC	1 cut(s)	1020
AspLEI	GCGC	1 cut(s)	115
AspS9I	GGNCC	1 cut(s)	863
AsuHPI	GGTGA	2 cut(s)	689, 1069
AvaII	GGWCC	1 cut(s)	863
BamHI	GGATCC	1 cut(s)	987
BanI	GGYRCC	1 cut(s)	112
BanII	GRGCYC	1 cut(s)	404
BbsI	GAAGAC	4 cut(s)	178, 204, 273, 450
Bbv12I	GWGCWC	3 cut(s)	404, 804, 1064
BccI	CCATC	3 cut(s)	279, 441, 1006
BceAI	ACGGC	1 cut(s)	1010
BciT130I	CCWGG	1 cut(s)	1053
BclI	TGATCA	2 cut(s)	51, 340
BcoDI	GTCTC	1 cut(s)	356
BfaI	CTAG	2 cut(s)	386, 462
BfmI	CTRYAG	1 cut(s)	261
BfoI	RGCGCY	1 cut(s)	116
BisI	GCNGC	1 cut(s)	1035
BlsI	GCNGC	1 cut(s)	1036
Bme1390I	CCNGG	1 cut(s)	1053
Bme18I	GGWCC	1 cut(s)	863
BmgT120I	GGNCC	1 cut(s)	863
BmiI	GGNNCC	2 cut(s)	114, 989
BmrFI	CCNGG	1 cut(s)	1053
BoxI	GACNNNNGTC	1 cut(s)	26
BpiI	GAAGAC	4 cut(s)	178, 204, 273, 450
BplI	GAGNNNNNCTC	2 cut(s)	357, 389
Bpu10I	CCTNAGC	1 cut(s)	403
BpuEI	CTTGAG	2 cut(s)	418, 990
BsaBI	GATNNNNATC	1 cut(s)	517
BsaHI	GRCGYC	1 cut(s)	113
BsaI	GGTCTC	1 cut(s)	356
BsaJI	CCNNGG	3 cut(s)	751, 992, 1052
BsaWI	WCCGGW	1 cut(s)	779
BsaXI	ACNNNNNCTCC	2 cut(s)	15, 45
Bsc4I	CCNNNNNNNGG	3 cut(s)	109, 574, 752
Bse1I	ACTGG	2 cut(s)	246, 477
Bse3DI	GCAATG	1 cut(s)	590
Bse8I	GATNNNNATC	1 cut(s)	517
BseBI	CCWGG	1 cut(s)	1053
BseDI	CCNNGG	3 cut(s)	751, 992, 1052
BseGI	GGATG	2 cut(s)	599, 1048
BseJI	GATNNNNATC	1 cut(s)	517
BseLI	CCNNNNNNNGG	3 cut(s)	109, 574, 752
BseMI	GCAATG	1 cut(s)	590
BseMII	CTCAG	1 cut(s)	417
BseNI	ACTGG	2 cut(s)	246, 477
BseRI	GAGGAG	1 cut(s)	695
BseYI	CCCAGC	1 cut(s)	545
BsgI	GTGCAG	1 cut(s)	858
Bsh1236I	CGCG	1 cut(s)	27
BshNI	GGYRCC	1 cut(s)	112
BsiHKAI	GWGCWC	3 cut(s)	404, 804, 1064
BsiSI	CCGG	2 cut(s)	174, 780
BslI	CCNNNNNNNGG	3 cut(s)	109, 574, 752
BsmAI	GTCTC	1 cut(s)	356
Bso31I	GGTCTC	1 cut(s)	356
Bsp1286I	GDGCHC	3 cut(s)	404, 804, 1064
Bsp143I	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
Bsp19I	CCATGG	1 cut(s)	751
BspACI	CCGC	1 cut(s)	1034
BspCNI	CTCAG	1 cut(s)	416
BspFNI	CGCG	1 cut(s)	27
BspLI	GGNNCC	2 cut(s)	114, 989
BspPI	GGATC	5 cut(s)	149, 507, 585, 982, 995
BspT107I	GGYRCC	1 cut(s)	112
BspTNI	GGTCTC	1 cut(s)	356
BsrDI	GCAATG	1 cut(s)	590
BsrI	ACTGG	2 cut(s)	246, 477
BssECI	CCNNGG	3 cut(s)	751, 992, 1052
BssMI	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
BssNI	GRCGYC	1 cut(s)	113
BssT1I	CCWWGG	1 cut(s)	751
Bst2UI	CCWGG	1 cut(s)	1053
Bst4CI	ACNGT	4 cut(s)	67, 150, 215, 691
Bst6I	CTCTTC	2 cut(s)	358, 404
BstACI	GRCGYC	1 cut(s)	113
BstDEI	CTNAG	4 cut(s)	18, 190, 403, 700
BstDSI	CCRYGG	2 cut(s)	751, 992
BstF5I	GGATG	2 cut(s)	599, 1048
BstFNI	CGCG	1 cut(s)	27
BstH2I	RGCGCY	1 cut(s)	116
BstHHI	GCGC	1 cut(s)	115
BstKTI	GATC	7 cut(s)	41, 54, 157, 343, 515, 580, 990
BstMAI	GTCTC	1 cut(s)	356
BstMBI	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
BstMWI	GCNNNNNNNGC	1 cut(s)	88
BstNI	CCWGG	1 cut(s)	1053
BstNSI	RCATGY	1 cut(s)	743
BstPAI	GACNNNNGTC	1 cut(s)	26
BstSCI	CCNGG	1 cut(s)	1051
BstSFI	CTRYAG	1 cut(s)	261
BstUI	CGCG	1 cut(s)	27
BstV2I	GAAGAC	4 cut(s)	178, 204, 273, 450
BstX2I	RGATCY	2 cut(s)	512, 987
BstXI	CCANNNNNNTGG	1 cut(s)	650
BstYI	RGATCY	2 cut(s)	512, 987
BtgI	CCRYGG	2 cut(s)	751, 992
BtsCI	GGATG	2 cut(s)	599, 1048
BtsI	GCAGTG	1 cut(s)	343
BtsIMutI	CAGTG	3 cut(s)	343, 386, 484
CaiI	CAGNNNCTG	1 cut(s)	872
CfoI	GCGC	1 cut(s)	115
Cfr13I	GGNCC	1 cut(s)	863
CseI	GACGC	1 cut(s)	16
Csp6I	GTAC	4 cut(s)	371, 416, 430, 737
CviAII	CATG	4 cut(s)	740, 752, 998, 1080
CviQI	GTAC	4 cut(s)	371, 416, 430, 737
DdeI	CTNAG	4 cut(s)	18, 190, 403, 700
DinI	GGCGCC	1 cut(s)	114
DpnI	GATC	7 cut(s)	40, 53, 156, 342, 514, 579, 989
DpnII	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
DraI	TTTAAA	2 cut(s)	358, 627
Eam1104I	CTCTTC	2 cut(s)	358, 404
EarI	CTCTTC	2 cut(s)	358, 404
Ecl136II	GAGCTC	1 cut(s)	402
Eco130I	CCWWGG	1 cut(s)	751
Eco24I	GRGCYC	1 cut(s)	404
Eco31I	GGTCTC	1 cut(s)	356
Eco32I	GATATC	1 cut(s)	976
Eco47I	GGWCC	1 cut(s)	863
Eco53kI	GAGCTC	1 cut(s)	402
EcoICRI	GAGCTC	1 cut(s)	402
EcoRII	CCWGG	1 cut(s)	1051
EcoRV	GATATC	1 cut(s)	976
EcoT14I	CCWWGG	1 cut(s)	751
EcoT38I	GRGCYC	1 cut(s)	404
EgeI	GGCGCC	1 cut(s)	114
EheI	GGCGCC	1 cut(s)	114
ErhI	CCWWGG	1 cut(s)	751
FaeI	CATG	4 cut(s)	743, 755, 1001, 1083
FatI	CATG	4 cut(s)	739, 751, 997, 1079
FbaI	TGATCA	2 cut(s)	51, 340
FblI	GTMKAC	1 cut(s)	696
Fnu4HI	GCNGC	1 cut(s)	1035
FokI	GGATG	2 cut(s)	586, 1055
FriOI	GRGCYC	1 cut(s)	404
Fsp4HI	GCNGC	1 cut(s)	1035
FspBI	CTAG	2 cut(s)	386, 462
GlaI	GCGC	1 cut(s)	114
GluI	GCNGC	1 cut(s)	1035
GsaI	CCCAGC	1 cut(s)	549
HaeII	RGCGCY	1 cut(s)	116
HapII	CCGG	2 cut(s)	174, 780
HgaI	GACGC	1 cut(s)	16
HhaI	GCGC	1 cut(s)	115
Hin1I	GRCGYC	1 cut(s)	113
Hin1II	CATG	4 cut(s)	743, 755, 1001, 1083
Hin6I	GCGC	1 cut(s)	113
HinP1I	GCGC	1 cut(s)	113
HincII	GTYRAC	2 cut(s)	687, 936
HindII	GTYRAC	2 cut(s)	687, 936
HindIII	AAGCTT	1 cut(s)	656
HinfI	GANTC	4 cut(s)	165, 446, 760, 929
HpaI	GTTAAC	1 cut(s)	687
HpaII	CCGG	2 cut(s)	174, 780
HphI	GGTGA	2 cut(s)	689, 1069
Hpy166II	GTNNAC	3 cut(s)	687, 697, 936
Hpy188I	TCNGA	5 cut(s)	56, 154, 210, 438, 451
Hpy188III	TCNNGA	4 cut(s)	42, 524, 764, 1007
Hpy8I	GTNNAC	3 cut(s)	687, 697, 936
Hpy99I	CGWCG	1 cut(s)	219
HpyCH4III	ACNGT	4 cut(s)	67, 150, 215, 691
HpyCH4V	TGCA	4 cut(s)	91, 325, 595, 875
HpyF10VI	GCNNNNNNNGC	1 cut(s)	88
HpyF3I	CTNAG	4 cut(s)	18, 190, 403, 700
Hsp92I	GRCGYC	1 cut(s)	113
Hsp92II	CATG	4 cut(s)	743, 755, 1001, 1083
HspAI	GCGC	1 cut(s)	113
KasI	GGCGCC	1 cut(s)	112
Ksp22I	TGATCA	2 cut(s)	51, 340
KspAI	GTTAAC	1 cut(s)	687
Kzo9I	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
LmnI	GCTCC	2 cut(s)	254, 799
MaeI	CTAG	2 cut(s)	386, 462
MaeIII	GTNAC	3 cut(s)	286, 583, 772
MalI	GATC	7 cut(s)	40, 53, 156, 342, 514, 579, 989
MboI	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
MflI	RGATCY	2 cut(s)	512, 987
MhlI	GDGCHC	3 cut(s)	404, 804, 1064
MluCI	AATT	3 cut(s)	440, 712, 881
MluI	ACGCGT	1 cut(s)	25
Mly113I	GGCGCC	1 cut(s)	113
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	1 cut(s)	777
MroXI	GAANNNNTTC	1 cut(s)	1020
MseI	TTAA	6 cut(s)	357, 626, 686, 710, 959, 1073
MslI	CAYNNNNRTG	1 cut(s)	1067
MspI	CCGG	2 cut(s)	174, 780
MspR9I	CCNGG	1 cut(s)	1053
MvaI	CCWGG	1 cut(s)	1053
MvnI	CGCG	1 cut(s)	27
MwoI	GCNNNNNNNGC	1 cut(s)	88
NarI	GGCGCC	1 cut(s)	113
NcoI	CCATGG	1 cut(s)	751
NdeII	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
NlaIII	CATG	4 cut(s)	743, 755, 1001, 1083
NlaIV	GGNNCC	2 cut(s)	114, 989
NmuCI	GTSAC	3 cut(s)	286, 583, 772
NspI	RCATGY	1 cut(s)	743
PciI	ACATGT	1 cut(s)	739
PdmI	GAANNNNTTC	1 cut(s)	1020
PfeI	GAWTC	3 cut(s)	165, 760, 929
PflMI	CCANNNNNTGG	1 cut(s)	109
PkrI	GCNGC	1 cut(s)	1036
PleI	GAGTC	1 cut(s)	454
PluTI	GGCGCC	1 cut(s)	116
PpsI	GAGTC	1 cut(s)	454
PscI	ACATGT	1 cut(s)	739
PshAI	GACNNNNGTC	1 cut(s)	26
Psp124BI	GAGCTC	1 cut(s)	404
Psp6I	CCWGG	1 cut(s)	1051
PspFI	CCCAGC	1 cut(s)	545
PspGI	CCWGG	1 cut(s)	1051
PspN4I	GGNNCC	2 cut(s)	114, 989
PspPI	GGNCC	1 cut(s)	863
PsrI	GAACNNNNNNTAC	2 cut(s)	1008, 1040
PstNI	CAGNNNCTG	1 cut(s)	872
PsuI	RGATCY	2 cut(s)	512, 987
RsaI	GTAC	4 cut(s)	372, 417, 431, 738
RsaNI	GTAC	4 cut(s)	371, 416, 430, 737
RseI	CAYNNNNRTG	1 cut(s)	1067
SacI	GAGCTC	1 cut(s)	404
SaqAI	TTAA	6 cut(s)	357, 626, 686, 710, 959, 1073
SatI	GCNGC	1 cut(s)	1035
Sau3AI	GATC	7 cut(s)	38, 51, 154, 340, 512, 577, 987
Sau96I	GGNCC	1 cut(s)	863
SchI	GAGTC	1 cut(s)	455
ScrFI	CCNGG	1 cut(s)	1053
SduI	GDGCHC	3 cut(s)	404, 804, 1064
SfcI	CTRYAG	1 cut(s)	261
SfoI	GGCGCC	1 cut(s)	114
SinI	GGWCC	1 cut(s)	863
SmiMI	CAYNNNNRTG	1 cut(s)	1067
SmlI	CTYRAG	2 cut(s)	397, 1005
SmoI	CTYRAG	2 cut(s)	397, 1005
Sse9I	AATT	3 cut(s)	440, 712, 881
SsiI	CCGC	1 cut(s)	1034
SspDI	GGCGCC	1 cut(s)	112
SspMI	CTAG	2 cut(s)	386, 462
SstI	GAGCTC	1 cut(s)	404
StyD4I	CCNGG	1 cut(s)	1051
StyI	CCWWGG	1 cut(s)	751
TaaI	ACNGT	4 cut(s)	67, 150, 215, 691
TaqI	TCGA	2 cut(s)	195, 843
TasI	AATT	3 cut(s)	440, 712, 881
TatI	WGTACW	2 cut(s)	370, 736
TauI	GCSGC	1 cut(s)	1037
TfiI	GAWTC	3 cut(s)	165, 760, 929
Tru1I	TTAA	6 cut(s)	357, 626, 686, 710, 959, 1073
Tru9I	TTAA	6 cut(s)	357, 626, 686, 710, 959, 1073
TscAI	CASTG	3 cut(s)	343, 386, 484
TseFI	GTSAC	3 cut(s)	286, 583, 772
Tsp45I	GTSAC	3 cut(s)	286, 583, 772
TspDTI	ATGAA	6 cut(s)	150, 320, 498, 711, 831, 939
TspGWI	ACGGA	2 cut(s)	177, 216
TspRI	CASTG	3 cut(s)	343, 386, 484
Van91I	CCANNNNNTGG	1 cut(s)	109
VpaK11BI	GGWCC	1 cut(s)	863
XapI	RAATTY	1 cut(s)	712
XceI	RCATGY	1 cut(s)	743
XmiI	GTMKAC	1 cut(s)	696
XmnI	GAANNNNTTC	1 cut(s)	1020
XspI	CTAG	2 cut(s)	386, 462

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