Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0003549

Physical Location & Seq

Genomic Coordinates Forward (+)

31888943 .. 31894138

Gene Structure 5196 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG180300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGCCTAAAAGGTTTCACCAAATTTCAGTGGGTTTTGTTTGCTTGCAGATGTTTTATAGGTTTTATATTGCACAAGCATTTCTATATCATTTCCACGCCTCCTTTATATTGGCAAATTTTTTATCTCTATATTATATAAGGAAGATGCATAATGTTATATTGCAATGCTCTCTTTTTTTTTTTTCTGCAGCTGCCAATATAAGGATGAGATATCCTGTGTTGAAGTTTGGAGGTCAAGTTACATATAGCAGGACTGCAGTTGAAGTGGAGAAAGCTGCCATGGAGATTTTGAAGACTGTGAAAGCAAAGAAAAACGAAATGGGTCAAAATGCAGTTGGATTTGATATTGAGTGGAAACCCACATTCCAAAGAGGTGTTCCACCTGGGAAGGTTGCAGTCCTGCAGATATGTGGAGACACAAGTTGTTGTCATGTGATGCATATCATTCATTCTGGAATTCCTCGAAGTCTGCAGTTACTTCTTGAAAGTTCTTCGATTTTGAAGGTTGGAGCTGGTATCGCTAATGATGCTGTTAAGGTTTTCAAGGATTATAATGTATCTATTAAAGCTGTGGAGGATCTTTCATATCTGGCTAATCATAAGCTTGGAGATTCACAAAATTGGGGCCTTGCATCCCTAACTGAGAAGCTCATTTGTAAACAGCTTCTGAAGCCCAAAAAAATTCGATTGGGTAACTGGGAGACCAAATATTTATCAAAAGAGCAGCTGCAGTATGCTGCCACTGATGCATTTGCATCATGGTATCTTCATGAGGTGCTAAGGAGCCTCCCTGATGCTGAAAAACTTGAAAAAGTTACAGCAGACAACCAGAGTGAGGGACAAGCTGTATCATGTAATTACTTTCAGACTGAGGAACCACAAGCTGCATCATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009987 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_pol_A_exo1

Protein Analysis

298

Amino Acids

33.71

Weight (kDa)

9.1

Isoelectric Point (pI)

46.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	90 - 261	3.6e-21	3'-5' exonuclease

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)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003549)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G34110 AT4G13870 AT4G13870 AT4G13885
fragaria_vesca	FvH4_4g13310 FvH4_4g13310
malus_domestica	MD05G1230400.v1.1
prunus_persica	Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1 Prupe.1G164900_v2.0.a1
pyrus_communis	pycom04g01340
rosa_chinensis	RchiOBHm_Chr4g0413601
rosa_laevigata	RLG00000008207
rosa_roxburghii	Rroxscaffold_1G00029650 Rroxscaffold_3G00236750 Rroxscaffold_3G00240660 Rroxscaffold_5G00357530
rosa_rugosa	Rorug04G0121400
rosa_samantha	Rh4AG181100 Rh4BG180300 Rh4CG192200 Rh4DG176400
rosa_wichuraiana	Rw4G015130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	552
AclWI	GGATC	1 cut(s)	585
AcsI	RAATTY	4 cut(s)	21, 115, 456, 681
AcuI	CTGAAG	1 cut(s)	689
AfiI	CCNNNNNNNGG	2 cut(s)	201, 835
AgsI	TTSAA	7 cut(s)	223, 263, 292, 485, 502, 544, 809
AjnI	CCWGG	1 cut(s)	382
AjuI	GAANNNNNNNTTGG	2 cut(s)	360, 392
Alw26I	GTCTC	2 cut(s)	408, 695
AlwI	GGATC	1 cut(s)	585
AlwNI	CAGNNNCTG	1 cut(s)	667
AoxI	GGCC	1 cut(s)	625
ApeKI	GCWGC	7 cut(s)	188, 191, 275, 724, 727, 737, 884
ApoI	RAATTY	4 cut(s)	21, 115, 456, 681
AspS9I	GGNCC	1 cut(s)	625
AsuHPI	GGTGA	1 cut(s)	8
BbsI	GAAGAC	1 cut(s)	299
BbvI	GCAGC	7 cut(s)	178, 200, 262, 714, 724, 736, 871
BciT130I	CCWGG	1 cut(s)	384
BcoDI	GTCTC	2 cut(s)	408, 695
BfmI	CTRYAG	5 cut(s)	186, 255, 401, 470, 728
BisI	GCNGC	7 cut(s)	189, 192, 276, 725, 728, 738, 885
BlsI	GCNGC	7 cut(s)	190, 193, 277, 726, 729, 739, 886
Bme1390I	CCNGG	1 cut(s)	384
BmgT120I	GGNCC	1 cut(s)	625
BmiI	GGNNCC	3 cut(s)	626, 785, 876
BmrFI	CCNGG	1 cut(s)	384
BmrI	ACTGGG	1 cut(s)	706
BmsI	GCATC	7 cut(s)	135, 426, 517, 641, 736, 764, 784
BmuI	ACTGGG	1 cut(s)	706
BpiI	GAAGAC	1 cut(s)	299
Bpu10I	CCTNAGC	1 cut(s)	779
BsaBI	GATNNNNATC	1 cut(s)	440
BsaI	GGTCTC	1 cut(s)	695
BsaJI	CCNNGG	2 cut(s)	279, 383
BsaXI	ACNNNNNCTCC	2 cut(s)	222, 252
Bsc4I	CCNNNNNNNGG	2 cut(s)	201, 835
Bse1I	ACTGG	1 cut(s)	701
Bse3DI	GCAATG	1 cut(s)	170
Bse8I	GATNNNNATC	1 cut(s)	440
BseBI	CCWGG	1 cut(s)	384
BseDI	CCNNGG	2 cut(s)	279, 383
BseGI	GGATG	2 cut(s)	210, 632
BseJI	GATNNNNATC	1 cut(s)	440
BseLI	CCNNNNNNNGG	2 cut(s)	201, 835
BseMI	GCAATG	1 cut(s)	170
BseMII	CTCAG	2 cut(s)	633, 861
BseNI	ACTGG	1 cut(s)	701
BseXI	GCAGC	7 cut(s)	178, 200, 262, 714, 724, 736, 871
BshFI	GGCC	1 cut(s)	627
BslFI	GGGAC	1 cut(s)	852
BslI	CCNNNNNNNGG	2 cut(s)	201, 835
BsmAI	GTCTC	2 cut(s)	408, 695
BsmFI	GGGAC	1 cut(s)	852
BsnI	GGCC	1 cut(s)	627
Bso31I	GGTCTC	1 cut(s)	695
Bsp143I	GATC	1 cut(s)	577
Bsp19I	CCATGG	1 cut(s)	279
BspANI	GGCC	1 cut(s)	627
BspCNI	CTCAG	2 cut(s)	634, 862
BspHI	TCATGA	1 cut(s)	769
BspLI	GGNNCC	3 cut(s)	626, 785, 876
BspMAI	CTGCAG	5 cut(s)	190, 259, 405, 474, 732
BspPI	GGATC	1 cut(s)	585
BspTNI	GGTCTC	1 cut(s)	695
BsrDI	GCAATG	1 cut(s)	170
BsrI	ACTGG	1 cut(s)	701
BssECI	CCNNGG	2 cut(s)	279, 383
BssMI	GATC	1 cut(s)	577
BssT1I	CCWWGG	1 cut(s)	279
Bst2UI	CCWGG	1 cut(s)	384
Bst4CI	ACNGT	1 cut(s)	298
BstC8I	GCNNGC	1 cut(s)	44
BstDEI	CTNAG	3 cut(s)	642, 779, 870
BstDSI	CCRYGG	1 cut(s)	279
BstF5I	GGATG	2 cut(s)	210, 632
BstKTI	GATC	1 cut(s)	580
BstMAI	GTCTC	2 cut(s)	408, 695
BstMBI	GATC	1 cut(s)	577
BstMWI	GCNNNNNNNGC	4 cut(s)	518, 527, 670, 746
BstNI	CCWGG	1 cut(s)	384
BstSCI	CCNGG	1 cut(s)	382
BstSFI	CTRYAG	5 cut(s)	186, 255, 401, 470, 728
BstV1I	GCAGC	7 cut(s)	178, 200, 262, 714, 724, 736, 871
BstV2I	GAAGAC	1 cut(s)	299
BstX2I	RGATCY	1 cut(s)	577
BstYI	RGATCY	1 cut(s)	577
BsuRI	GGCC	1 cut(s)	627
BtgI	CCRYGG	1 cut(s)	279
BtsCI	GGATG	2 cut(s)	210, 632
BtsIMutI	CAGTG	2 cut(s)	33, 741
Cac8I	GCNNGC	1 cut(s)	44
CaiI	CAGNNNCTG	1 cut(s)	667
CciI	TCATGA	1 cut(s)	769
Cfr13I	GGNCC	1 cut(s)	625
CviAII	CATG	5 cut(s)	280, 431, 759, 770, 852
DdeI	CTNAG	3 cut(s)	642, 779, 870
DpnI	GATC	1 cut(s)	579
DpnII	GATC	1 cut(s)	577
Eco130I	CCWWGG	1 cut(s)	279
Eco31I	GGTCTC	1 cut(s)	695
Eco32I	GATATC	1 cut(s)	212
Eco57I	CTGAAG	1 cut(s)	689
EcoO109I	RGGNCCY	1 cut(s)	625
EcoRI	GAATTC	1 cut(s)	456
EcoRII	CCWGG	1 cut(s)	382
EcoRV	GATATC	1 cut(s)	212
EcoT14I	CCWWGG	1 cut(s)	279
EcoT22I	ATGCAT	3 cut(s)	150, 441, 751
ErhI	CCWWGG	1 cut(s)	279
FaeI	CATG	5 cut(s)	283, 434, 762, 773, 855
FaqI	GGGAC	1 cut(s)	852
FatI	CATG	5 cut(s)	279, 430, 758, 769, 851
Fnu4HI	GCNGC	7 cut(s)	189, 192, 276, 725, 728, 738, 885
FokI	GGATG	2 cut(s)	217, 619
Fsp4HI	GCNGC	7 cut(s)	189, 192, 276, 725, 728, 738, 885
GluI	GCNGC	7 cut(s)	189, 192, 276, 725, 728, 738, 885
HaeIII	GGCC	1 cut(s)	627
Hin1II	CATG	5 cut(s)	283, 434, 762, 773, 855
HindIII	AAGCTT	1 cut(s)	602
HinfI	GANTC	1 cut(s)	611
HphI	GGTGA	1 cut(s)	8
Hpy166II	GTNNAC	1 cut(s)	659
Hpy188I	TCNGA	2 cut(s)	669, 867
Hpy188III	TCNNGA	3 cut(s)	453, 482, 770
Hpy8I	GTNNAC	1 cut(s)	659
HpyAV	CCTTC	2 cut(s)	382, 496
HpyCH4III	ACNGT	1 cut(s)	298
HpyF10VI	GCNNNNNNNGC	4 cut(s)	518, 527, 670, 746
HpyF3I	CTNAG	3 cut(s)	642, 779, 870
Hsp92II	CATG	5 cut(s)	283, 434, 762, 773, 855
Kzo9I	GATC	1 cut(s)	577
LmnI	GCTCC	2 cut(s)	509, 783
Lsp1109I	GCAGC	7 cut(s)	178, 200, 262, 714, 724, 736, 871
LweI	GCATC	7 cut(s)	135, 426, 517, 641, 736, 764, 784
MaeIII	GTNAC	4 cut(s)	238, 474, 692, 814
MalI	GATC	1 cut(s)	579
MboI	GATC	1 cut(s)	577
MboII	GAAGA	4 cut(s)	154, 304, 483, 758
MflI	RGATCY	1 cut(s)	577
MluCI	AATT	6 cut(s)	21, 115, 456, 619, 681, 856
MmeI	TCCRAC	2 cut(s)	316, 487
MnlI	CCTC	9 cut(s)	109, 224, 365, 471, 568, 766, 797, 829, 865
Mph1103I	ATGCAT	3 cut(s)	150, 441, 751
MseI	TTAA	2 cut(s)	534, 564
MspA1I	CMGCKG	2 cut(s)	191, 727
MspR9I	CCNGG	1 cut(s)	384
MvaI	CCWGG	1 cut(s)	384
MwoI	GCNNNNNNNGC	4 cut(s)	518, 527, 670, 746
NcoI	CCATGG	1 cut(s)	279
NdeII	GATC	1 cut(s)	577
NlaIII	CATG	5 cut(s)	283, 434, 762, 773, 855
NlaIV	GGNNCC	3 cut(s)	626, 785, 876
NsiI	ATGCAT	3 cut(s)	150, 441, 751
PagI	TCATGA	1 cut(s)	769
PfeI	GAWTC	1 cut(s)	611
PkrI	GCNGC	7 cut(s)	190, 193, 277, 726, 729, 739, 886
PsiI	TTATAA	1 cut(s)	552
Psp6I	CCWGG	1 cut(s)	382
PspGI	CCWGG	1 cut(s)	382
PspN4I	GGNNCC	3 cut(s)	626, 785, 876
PspPI	GGNCC	1 cut(s)	625
PstI	CTGCAG	5 cut(s)	190, 259, 405, 474, 732
PstNI	CAGNNNCTG	1 cut(s)	667
PsuI	RGATCY	1 cut(s)	577
PvuII	CAGCTG	2 cut(s)	191, 727
SaqAI	TTAA	2 cut(s)	534, 564
SatI	GCNGC	7 cut(s)	189, 192, 276, 725, 728, 738, 885
Sau3AI	GATC	1 cut(s)	577
Sau96I	GGNCC	1 cut(s)	625
ScrFI	CCNGG	1 cut(s)	384
SfaNI	GCATC	7 cut(s)	135, 426, 517, 641, 736, 764, 784
SfcI	CTRYAG	5 cut(s)	186, 255, 401, 470, 728
Sse9I	AATT	6 cut(s)	21, 115, 456, 619, 681, 856
SspI	AATATT	1 cut(s)	710
StyD4I	CCNGG	1 cut(s)	382
StyI	CCWWGG	1 cut(s)	279
TaaI	ACNGT	1 cut(s)	298
TaqI	TCGA	3 cut(s)	463, 494, 685
TasI	AATT	6 cut(s)	21, 115, 456, 619, 681, 856
TfiI	GAWTC	1 cut(s)	611
Tru1I	TTAA	2 cut(s)	534, 564
Tru9I	TTAA	2 cut(s)	534, 564
TscAI	CASTG	2 cut(s)	33, 748
TseI	GCWGC	7 cut(s)	188, 191, 275, 724, 727, 737, 884
TspDTI	ATGAA	3 cut(s)	437, 573, 758
TspRI	CASTG	2 cut(s)	33, 748
XapI	RAATTY	4 cut(s)	21, 115, 456, 681
Zsp2I	ATGCAT	3 cut(s)	150, 441, 751

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