Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001899

Physical Location & Seq

Genomic Coordinates Reverse (-)

6089011 .. 6091900

Gene Structure 2890 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG079000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGTGACTTCAGATGCACCTTCTGTGGATAAGTGGATTGATAATACTTATCGCGCTCATGGTGACAAGTTTCTTGTGGGCCTTGATACTGAATGGCAATGGGACCACGAAACTCGAGATTATGAAGTTGCAGTTCTTCAACTATGTGTGGGTCGCCATTGCCTTGTTTATCAATTGTCCCACTCCAAAAGCATTCCTCAATCGCTCATCAAATTCCTCGGTGATGAAAACGTGACTTTCATTGCTAAGGAAGTTCGAGAGGATGTGACTCGTTTGGCTCGTCAAGGATTACACGTTAGATGTGCTATGGATGTCGCTCATATGGCTGCAAAGAAATACAAAGACAATAGCTACAAGTCCATGGGATTGAAGAAGTTGGCGATGGAGTTTCTGAACAAGGAGATGGAGAAGGATAAGAAAATTACAATGAGTCTTTGGGGTAATGAACGACTCAATCGCCTTCAAGTGGAGTATGCTTGCATAGATGCTTTTGTTTCGTTTCAACTAGGAGTGCAATTACAAATGCCCTACTCAAGTGAAGAGAGAATGAAATGCATCGCCGAGACAAAGAACTTTTGCATTAATGCATATTCATCAAGAAATTCCAACCGGAAGAAGTATCACATTATCAAAGAGGAAATAGCTGATATTGGCGATTATAGTAAGATTGTACCAACGGGTTGGTTCATCGAAGAAGAAGCGATTGATGTTGGGGATTACACCAAGATTGTACCAACAGGACCACCAGCCACCGGTCAAGTTATAACTCGATTTGTCTCGCTGAATAGAGTCTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000287 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006139 GO:0006259 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009987 GO:0016787 GO:0016788 GO:0030145 GO:0031974 GO:0031981 GO:0034641 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046872 GO:0046914 GO:0070013 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

265

Amino Acids

30.45

Weight (kDa)

7.04

Isoelectric Point (pI)

32.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	23 - 173	1.5e-15	3'-5' exonuclease

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0001899)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36110 AT3G12410 AT3G12420 AT3G12430 AT3G12440 AT3G12460 AT3G12470
fragaria_vesca	FvH4_1g07360 FvH4_3g40510 FvH4_3g40510 FvH4_3g40510
malus_domestica	MD03G1253300.v1.1 MD09G1279200.v1.1 MD12G1053400.v1.1 MD14G1051900.v1.1
prunus_persica	Prupe.4G179100_v2.0.a1 Prupe.7G019000_v2.0.a1
pyrus_communis	pycom03g20090
rosa_chinensis	RchiOBHm_Chr5g0073181
rosa_laevigata	RLG00000005619 RLG00000016382 RLG00000036371
rosa_roxburghii	Rroxscaffold_1G00008010 Rroxscaffold_2G00148370 Rroxscaffold_5G00387270
rosa_rugosa	Rorug04G0376400 Rorug05G0421700 Rorug05G0421800
rosa_samantha	Rh2AG080000 Rh2AG080100 Rh2BG081000 Rh2BG081100 Rh2CG083400 Rh2CG083500 Rh2DG079000 Rh4AG437700 Rh4BG446600 Rh4CG463900 Rh4DG445300 Rh5AG478700 Rh5BG499400 Rh5CG522600 Rh5DG511500
rosa_wichuraiana	Rw2G006690 Rw4G037430 Rw5G044490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	764
AccII	CGCG	1 cut(s)	54
AcsI	RAATTY	2 cut(s)	212, 601
AfaI	GTAC	2 cut(s)	672, 732
AfiI	CCNNNNNNNGG	2 cut(s)	466, 752
AflIII	ACRYGT	1 cut(s)	292
AgeI	ACCGGT	1 cut(s)	752
AgsI	TTSAA	4 cut(s)	140, 370, 464, 503
AluBI	AGCT	2 cut(s)	351, 644
AluI	AGCT	2 cut(s)	351, 644
Alw26I	GTCTC	2 cut(s)	557, 781
Ama87I	CYCGRG	1 cut(s)	114
AoxI	GGCC	1 cut(s)	79
ApeKI	GCWGC	1 cut(s)	326
ApoI	RAATTY	2 cut(s)	212, 601
AseI	ATTAAT	1 cut(s)	582
AsiGI	ACCGGT	1 cut(s)	752
AspLEI	GCGC	1 cut(s)	56
AspS9I	GGNCC	3 cut(s)	79, 103, 740
AsuHPI	GGTGA	3 cut(s)	16, 74, 233
AvaI	CYCGRG	1 cut(s)	114
AvaII	GGWCC	2 cut(s)	103, 740
BbvI	GCAGC	1 cut(s)	313
BccI	CCATC	2 cut(s)	376, 397
BcoDI	GTCTC	2 cut(s)	557, 781
BfaI	CTAG	1 cut(s)	506
BisI	GCNGC	1 cut(s)	327
BlsI	GCNGC	1 cut(s)	328
Bme18I	GGWCC	2 cut(s)	103, 740
BmeT110I	CYCGRG	1 cut(s)	114
BmgT120I	GGNCC	3 cut(s)	79, 103, 740
BmiI	GGNNCC	1 cut(s)	104
BmsI	GCATC	3 cut(s)	4, 475, 564
Bpu10I	CCTNAGC	1 cut(s)	246
BpuEI	CTTGAG	1 cut(s)	517
BsaJI	CCNNGG	2 cut(s)	217, 360
BsaWI	WCCGGW	2 cut(s)	609, 752
Bsc4I	CCNNNNNNNGG	2 cut(s)	466, 752
Bse118I	RCCGGY	1 cut(s)	752
Bse3DI	GCAATG	3 cut(s)	104, 157, 240
BseDI	CCNNGG	2 cut(s)	217, 360
BseGI	GGATG	2 cut(s)	268, 316
BseLI	CCNNNNNNNGG	2 cut(s)	466, 752
BseMI	GCAATG	3 cut(s)	104, 157, 240
BseXI	GCAGC	1 cut(s)	313
Bsh1236I	CGCG	1 cut(s)	54
BshFI	GGCC	1 cut(s)	81
BshTI	ACCGGT	1 cut(s)	752
BsiHKCI	CYCGRG	1 cut(s)	114
BsiSI	CCGG	2 cut(s)	610, 753
BslFI	GGGAC	2 cut(s)	116, 163
BslI	CCNNNNNNNGG	2 cut(s)	466, 752
BsmAI	GTCTC	2 cut(s)	557, 781
BsmFI	GGGAC	2 cut(s)	116, 163
BsmI	GAATGC	1 cut(s)	192
BsnI	GGCC	1 cut(s)	81
BsoBI	CYCGRG	1 cut(s)	114
Bsp19I	CCATGG	1 cut(s)	360
BspANI	GGCC	1 cut(s)	81
BspFNI	CGCG	1 cut(s)	54
BspLI	GGNNCC	1 cut(s)	104
BsrDI	GCAATG	3 cut(s)	104, 157, 240
BsrFI	RCCGGY	1 cut(s)	752
BssAI	RCCGGY	1 cut(s)	752
BssECI	CCNNGG	2 cut(s)	217, 360
BssT1I	CCWWGG	1 cut(s)	360
Bst6I	CTCTTC	1 cut(s)	534
BstC8I	GCNNGC	1 cut(s)	478
BstDEI	CTNAG	1 cut(s)	246
BstDSI	CCRYGG	1 cut(s)	360
BstF5I	GGATG	2 cut(s)	268, 316
BstFNI	CGCG	1 cut(s)	54
BstHHI	GCGC	1 cut(s)	56
BstMAI	GTCTC	2 cut(s)	557, 781
BstMWI	GCNNNNNNNGC	1 cut(s)	323
BstUI	CGCG	1 cut(s)	54
BstV1I	GCAGC	1 cut(s)	313
BstXI	CCANNNNNNTGG	1 cut(s)	681
BsuRI	GGCC	1 cut(s)	81
BtgI	CCRYGG	1 cut(s)	360
BtgZI	GCGATG	2 cut(s)	395, 541
BtsCI	GGATG	2 cut(s)	268, 316
Cac8I	GCNNGC	1 cut(s)	478
CfoI	GCGC	1 cut(s)	56
Cfr10I	RCCGGY	1 cut(s)	752
Cfr13I	GGNCC	3 cut(s)	79, 103, 740
Csp6I	GTAC	2 cut(s)	671, 731
CspAI	ACCGGT	1 cut(s)	752
CviAII	CATG	2 cut(s)	59, 361
CviJI	RGCY	6 cut(s)	81, 278, 326, 351, 644, 749
CviKI_1	RGCY	6 cut(s)	81, 278, 326, 351, 644, 749
CviQI	GTAC	2 cut(s)	671, 731
DdeI	CTNAG	1 cut(s)	246
Eam1104I	CTCTTC	1 cut(s)	534
EarI	CTCTTC	1 cut(s)	534
Eco130I	CCWWGG	1 cut(s)	360
Eco47I	GGWCC	2 cut(s)	103, 740
Eco88I	CYCGRG	1 cut(s)	114
EcoT14I	CCWWGG	1 cut(s)	360
EcoT22I	ATGCAT	2 cut(s)	557, 589
ErhI	CCWWGG	1 cut(s)	360
FaeI	CATG	2 cut(s)	62, 364
FaqI	GGGAC	2 cut(s)	116, 163
FatI	CATG	2 cut(s)	58, 360
FauNDI	CATATG	1 cut(s)	321
Fnu4HI	GCNGC	1 cut(s)	327
FokI	GGATG	2 cut(s)	275, 323
Fsp4HI	GCNGC	1 cut(s)	327
FspBI	CTAG	1 cut(s)	506
GlaI	GCGC	1 cut(s)	55
GluI	GCNGC	1 cut(s)	327
HaeIII	GGCC	1 cut(s)	81
HapII	CCGG	2 cut(s)	610, 753
HhaI	GCGC	1 cut(s)	56
Hin1II	CATG	2 cut(s)	62, 364
Hin6I	GCGC	1 cut(s)	54
HinP1I	GCGC	1 cut(s)	54
HinfI	GANTC	4 cut(s)	268, 430, 450, 789
HpaII	CCGG	2 cut(s)	610, 753
HphI	GGTGA	3 cut(s)	16, 74, 233
Hpy188I	TCNGA	2 cut(s)	13, 393
Hpy188III	TCNNGA	3 cut(s)	116, 257, 597
HpyAV	CCTTC	3 cut(s)	30, 403, 470
HpyCH4IV	ACGT	2 cut(s)	231, 294
HpyCH4V	TGCA	8 cut(s)	17, 131, 329, 480, 514, 555, 579, 587
HpyF10VI	GCNNNNNNNGC	1 cut(s)	323
HpyF3I	CTNAG	1 cut(s)	246
HpySE526I	ACGT	2 cut(s)	231, 294
Hsp92II	CATG	2 cut(s)	62, 364
HspAI	GCGC	1 cut(s)	54
LpnPI	CCDG	4 cut(s)	623, 723, 759, 766
Lsp1109I	GCAGC	1 cut(s)	313
LweI	GCATC	3 cut(s)	4, 475, 564
MaeI	CTAG	1 cut(s)	506
MaeII	ACGT	2 cut(s)	231, 294
MaeIII	GTNAC	4 cut(s)	4, 62, 232, 265
MboII	GAAGA	6 cut(s)	128, 382, 551, 625, 704, 707
MfeI	CAATTG	1 cut(s)	173
MluCI	AATT	5 cut(s)	173, 212, 420, 515, 601
MlyI	GAGTC	4 cut(s)	262, 439, 444, 798
MmeI	TCCRAC	1 cut(s)	630
MnlI	CCTC	4 cut(s)	207, 227, 253, 628
Mph1103I	ATGCAT	2 cut(s)	557, 589
MseI	TTAA	1 cut(s)	582
MspI	CCGG	2 cut(s)	610, 753
MunI	CAATTG	1 cut(s)	173
Mva1269I	GAATGC	1 cut(s)	192
MvnI	CGCG	1 cut(s)	54
MwoI	GCNNNNNNNGC	1 cut(s)	323
NcoI	CCATGG	1 cut(s)	360
NdeI	CATATG	1 cut(s)	321
NlaIII	CATG	2 cut(s)	62, 364
NlaIV	GGNNCC	1 cut(s)	104
NmeAIII	GCCGAG	1 cut(s)	586
NmuCI	GTSAC	4 cut(s)	4, 62, 232, 265
NsiI	ATGCAT	2 cut(s)	557, 589
PaeR7I	CTCGAG	1 cut(s)	114
PcsI	WCGNNNNNNNCGW	1 cut(s)	277
PctI	GAATGC	1 cut(s)	192
PinAI	ACCGGT	1 cut(s)	752
PkrI	GCNGC	1 cut(s)	328
PleI	GAGTC	4 cut(s)	262, 438, 444, 797
PpsI	GAGTC	4 cut(s)	262, 438, 444, 797
PshBI	ATTAAT	1 cut(s)	582
PsiI	TTATAA	1 cut(s)	764
PspN4I	GGNNCC	1 cut(s)	104
PspPI	GGNCC	3 cut(s)	79, 103, 740
RsaI	GTAC	2 cut(s)	672, 732
RsaNI	GTAC	2 cut(s)	671, 731
SaqAI	TTAA	1 cut(s)	582
SatI	GCNGC	1 cut(s)	327
Sau96I	GGNCC	3 cut(s)	79, 103, 740
SchI	GAGTC	4 cut(s)	262, 439, 444, 798
SetI	ASST	5 cut(s)	22, 234, 297, 353, 646
SfaNI	GCATC	3 cut(s)	4, 475, 564
Sfr274I	CTCGAG	1 cut(s)	114
SinI	GGWCC	2 cut(s)	103, 740
SlaI	CTCGAG	1 cut(s)	114
SmlI	CTYRAG	2 cut(s)	114, 532
SmoI	CTYRAG	2 cut(s)	114, 532
Sse9I	AATT	5 cut(s)	173, 212, 420, 515, 601
SspMI	CTAG	1 cut(s)	506
StyI	CCWWGG	1 cut(s)	360
TaiI	ACGT	2 cut(s)	234, 297
TaqI	TCGA	4 cut(s)	115, 256, 690, 769
TasI	AATT	5 cut(s)	173, 212, 420, 515, 601
Tru1I	TTAA	1 cut(s)	582
Tru9I	TTAA	1 cut(s)	582
TseFI	GTSAC	4 cut(s)	4, 62, 232, 265
TseI	GCWGC	1 cut(s)	326
Tsp45I	GTSAC	4 cut(s)	4, 62, 232, 265
TspDTI	ATGAA	7 cut(s)	138, 229, 240, 459, 563, 582, 676
VpaK11BI	GGWCC	2 cut(s)	103, 740
VspI	ATTAAT	1 cut(s)	582
XapI	RAATTY	2 cut(s)	212, 601
XhoI	CTCGAG	1 cut(s)	114
XspI	CTAG	1 cut(s)	506
Zsp2I	ATGCAT	2 cut(s)	557, 589

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