Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0003549

Physical Location & Seq

Genomic Coordinates Forward (+)

45217581 .. 45222635

Gene Structure 5055 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG181100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGCTTTTTTTTTGCCCTGCAGCTGCCAATATAAGGATGAGATATCCTGTGTTGAAGTTTGGAGGTCGGGTTACATATAGCAGGACTGCAGTTGAAGTGGAGAAAGCTGCCATGGAGATTTTAAAGACTGTGAAAGCAAAGACAAACGAAATGGGTCAAAATGCAGTTGGATTTGATATTGAGTGGAAACCCACATTCCAAAGAGGTGTTCCACCTGGGAAGGTTGCAGTTCTGCAGATATGTGGAGACACAAGTTGTTGCCATGTGATGCATATCATTCATTCTGGAATTCCTCGAAGTCTGCAGTTACTTCTTGAAAGTTCTTCGATTTTGAAGGTTGGAGCTGGTATCGCTAATGATGCTGTTAAGGTTTTCAAGGATTATAATGTATCTATTAAAGCTGTGGAGGATCTTTCATATCTGGCTAATCATAAGCTTGGAGATTCACAAAATTGGGGTCTTGCATCCCTAACTGAGAAGCTCATTTCTAAACAGCTTCTAAAGCCCAAAAAAATTCGATTGGGTAACTGGGAGACCAAATATTTATCAAAAGAGCAGCTGCAGTATGCTGCCACTGATGCATTTGCATCATGGTATCTTCATGAGGTGCTAAGGAGCCTCCCTGATGCTGAAAAACTTGAAAAAGTTACAGCAGACAACCAGAGTGAGGGACAAGCCGTATCATGTAATTACTTTCAGACTGAGGAACCACAAGCTGCATCATTGTAA

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

242

Amino Acids

26.85

Weight (kDa)

8.7

Isoelectric Point (pI)

41.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	37 - 205	7.4e-22	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)

Image

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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)	384
AclWI	GGATC	1 cut(s)	417
AcsI	RAATTY	2 cut(s)	288, 513
AfiI	CCNNNNNNNGG	2 cut(s)	33, 667
AgsI	TTSAA	6 cut(s)	55, 95, 317, 334, 376, 641
AjnI	CCWGG	1 cut(s)	214
AjuI	GAANNNNNNNTTGG	2 cut(s)	192, 224
AluBI	AGCT	9 cut(s)	23, 107, 344, 401, 436, 481, 496, 559, 716
AluI	AGCT	9 cut(s)	23, 107, 344, 401, 436, 481, 496, 559, 716
Alw26I	GTCTC	2 cut(s)	240, 527
AlwI	GGATC	1 cut(s)	417
ApeKI	GCWGC	7 cut(s)	20, 23, 107, 556, 559, 569, 716
ApoI	RAATTY	2 cut(s)	288, 513
ArsI	GACNNNNNNTTYG	2 cut(s)	442, 474
BbvI	GCAGC	7 cut(s)	10, 32, 94, 546, 556, 568, 703
BceAI	ACGGC	1 cut(s)	662
BciT130I	CCWGG	1 cut(s)	216
BcoDI	GTCTC	2 cut(s)	240, 527
BfmI	CTRYAG	5 cut(s)	18, 87, 233, 302, 560
BisI	GCNGC	7 cut(s)	21, 24, 108, 557, 560, 570, 717
BlsI	GCNGC	7 cut(s)	22, 25, 109, 558, 561, 571, 718
Bme1390I	CCNGG	1 cut(s)	216
BmiI	GGNNCC	2 cut(s)	617, 708
BmrFI	CCNGG	1 cut(s)	216
BmrI	ACTGGG	1 cut(s)	538
BmsI	GCATC	6 cut(s)	258, 349, 473, 568, 596, 616
BmuI	ACTGGG	1 cut(s)	538
Bpu10I	CCTNAGC	1 cut(s)	611
BsaBI	GATNNNNATC	1 cut(s)	272
BsaI	GGTCTC	1 cut(s)	527
BsaJI	CCNNGG	2 cut(s)	111, 215
BsaXI	ACNNNNNCTCC	2 cut(s)	54, 84
Bsc4I	CCNNNNNNNGG	2 cut(s)	33, 667
Bse1I	ACTGG	1 cut(s)	533
Bse8I	GATNNNNATC	1 cut(s)	272
BseBI	CCWGG	1 cut(s)	216
BseDI	CCNNGG	2 cut(s)	111, 215
BseGI	GGATG	2 cut(s)	42, 464
BseJI	GATNNNNATC	1 cut(s)	272
BseLI	CCNNNNNNNGG	2 cut(s)	33, 667
BseMII	CTCAG	2 cut(s)	465, 693
BseNI	ACTGG	1 cut(s)	533
BseXI	GCAGC	7 cut(s)	10, 32, 94, 546, 556, 568, 703
BslFI	GGGAC	1 cut(s)	684
BslI	CCNNNNNNNGG	2 cut(s)	33, 667
BsmAI	GTCTC	2 cut(s)	240, 527
BsmFI	GGGAC	1 cut(s)	684
Bso31I	GGTCTC	1 cut(s)	527
Bsp143I	GATC	1 cut(s)	409
Bsp19I	CCATGG	1 cut(s)	111
BspCNI	CTCAG	2 cut(s)	466, 694
BspHI	TCATGA	1 cut(s)	601
BspLI	GGNNCC	2 cut(s)	617, 708
BspMAI	CTGCAG	5 cut(s)	22, 91, 237, 306, 564
BspPI	GGATC	1 cut(s)	417
BspTNI	GGTCTC	1 cut(s)	527
BsrI	ACTGG	1 cut(s)	533
BssECI	CCNNGG	2 cut(s)	111, 215
BssMI	GATC	1 cut(s)	409
BssT1I	CCWWGG	1 cut(s)	111
Bst2UI	CCWGG	1 cut(s)	216
Bst4CI	ACNGT	1 cut(s)	130
BstDEI	CTNAG	3 cut(s)	474, 611, 702
BstDSI	CCRYGG	1 cut(s)	111
BstF5I	GGATG	2 cut(s)	42, 464
BstKTI	GATC	1 cut(s)	412
BstMAI	GTCTC	2 cut(s)	240, 527
BstMBI	GATC	1 cut(s)	409
BstMWI	GCNNNNNNNGC	4 cut(s)	350, 359, 502, 578
BstNI	CCWGG	1 cut(s)	216
BstSCI	CCNGG	1 cut(s)	214
BstSFI	CTRYAG	5 cut(s)	18, 87, 233, 302, 560
BstV1I	GCAGC	7 cut(s)	10, 32, 94, 546, 556, 568, 703
BstX2I	RGATCY	1 cut(s)	409
BstYI	RGATCY	1 cut(s)	409
BtgI	CCRYGG	1 cut(s)	111
BtsCI	GGATG	2 cut(s)	42, 464
BtsIMutI	CAGTG	1 cut(s)	573
CciI	TCATGA	1 cut(s)	601
CviAII	CATG	5 cut(s)	112, 263, 591, 602, 684
DdeI	CTNAG	3 cut(s)	474, 611, 702
DpnI	GATC	1 cut(s)	411
DpnII	GATC	1 cut(s)	409
DraI	TTTAAA	1 cut(s)	123
Eco130I	CCWWGG	1 cut(s)	111
Eco31I	GGTCTC	1 cut(s)	527
Eco32I	GATATC	1 cut(s)	44
EcoRI	GAATTC	1 cut(s)	288
EcoRII	CCWGG	1 cut(s)	214
EcoRV	GATATC	1 cut(s)	44
EcoT14I	CCWWGG	1 cut(s)	111
EcoT22I	ATGCAT	2 cut(s)	273, 583
ErhI	CCWWGG	1 cut(s)	111
FaeI	CATG	5 cut(s)	115, 266, 594, 605, 687
FaqI	GGGAC	1 cut(s)	684
FatI	CATG	5 cut(s)	111, 262, 590, 601, 683
Fnu4HI	GCNGC	7 cut(s)	21, 24, 108, 557, 560, 570, 717
FokI	GGATG	2 cut(s)	49, 451
Fsp4HI	GCNGC	7 cut(s)	21, 24, 108, 557, 560, 570, 717
GluI	GCNGC	7 cut(s)	21, 24, 108, 557, 560, 570, 717
Hin1II	CATG	5 cut(s)	115, 266, 594, 605, 687
HindIII	AAGCTT	1 cut(s)	434
HinfI	GANTC	1 cut(s)	443
Hpy188I	TCNGA	1 cut(s)	699
Hpy188III	TCNNGA	3 cut(s)	285, 314, 602
HpyAV	CCTTC	2 cut(s)	214, 328
HpyCH4III	ACNGT	1 cut(s)	130
HpyF10VI	GCNNNNNNNGC	4 cut(s)	350, 359, 502, 578
HpyF3I	CTNAG	3 cut(s)	474, 611, 702
Hsp92II	CATG	5 cut(s)	115, 266, 594, 605, 687
Kzo9I	GATC	1 cut(s)	409
LmnI	GCTCC	2 cut(s)	341, 615
Lsp1109I	GCAGC	7 cut(s)	10, 32, 94, 546, 556, 568, 703
LweI	GCATC	6 cut(s)	258, 349, 473, 568, 596, 616
MaeIII	GTNAC	4 cut(s)	70, 306, 524, 646
MalI	GATC	1 cut(s)	411
MboI	GATC	1 cut(s)	409
MboII	GAAGA	2 cut(s)	315, 590
MflI	RGATCY	1 cut(s)	409
MluCI	AATT	4 cut(s)	288, 451, 513, 688
MmeI	TCCRAC	2 cut(s)	148, 319
MnlI	CCTC	8 cut(s)	56, 197, 303, 400, 598, 629, 661, 697
Mph1103I	ATGCAT	2 cut(s)	273, 583
MseI	TTAA	3 cut(s)	122, 366, 396
MspA1I	CMGCKG	2 cut(s)	23, 559
MspR9I	CCNGG	1 cut(s)	216
MvaI	CCWGG	1 cut(s)	216
MwoI	GCNNNNNNNGC	4 cut(s)	350, 359, 502, 578
NcoI	CCATGG	1 cut(s)	111
NdeII	GATC	1 cut(s)	409
NlaIII	CATG	5 cut(s)	115, 266, 594, 605, 687
NlaIV	GGNNCC	2 cut(s)	617, 708
NsiI	ATGCAT	2 cut(s)	273, 583
PagI	TCATGA	1 cut(s)	601
PfeI	GAWTC	1 cut(s)	443
PkrI	GCNGC	7 cut(s)	22, 25, 109, 558, 561, 571, 718
PsiI	TTATAA	1 cut(s)	384
Psp6I	CCWGG	1 cut(s)	214
PspGI	CCWGG	1 cut(s)	214
PspN4I	GGNNCC	2 cut(s)	617, 708
PstI	CTGCAG	5 cut(s)	22, 91, 237, 306, 564
PsuI	RGATCY	1 cut(s)	409
PvuII	CAGCTG	2 cut(s)	23, 559
SaqAI	TTAA	3 cut(s)	122, 366, 396
SatI	GCNGC	7 cut(s)	21, 24, 108, 557, 560, 570, 717
Sau3AI	GATC	1 cut(s)	409
ScrFI	CCNGG	1 cut(s)	216
SfaNI	GCATC	6 cut(s)	258, 349, 473, 568, 596, 616
SfcI	CTRYAG	5 cut(s)	18, 87, 233, 302, 560
Sse9I	AATT	4 cut(s)	288, 451, 513, 688
SspI	AATATT	1 cut(s)	542
StyD4I	CCNGG	1 cut(s)	214
StyI	CCWWGG	1 cut(s)	111
TaaI	ACNGT	1 cut(s)	130
TaqI	TCGA	3 cut(s)	295, 326, 517
TasI	AATT	4 cut(s)	288, 451, 513, 688
TfiI	GAWTC	1 cut(s)	443
Tru1I	TTAA	3 cut(s)	122, 366, 396
Tru9I	TTAA	3 cut(s)	122, 366, 396
TscAI	CASTG	1 cut(s)	580
TseI	GCWGC	7 cut(s)	20, 23, 107, 556, 559, 569, 716
TspDTI	ATGAA	3 cut(s)	269, 405, 590
TspRI	CASTG	1 cut(s)	580
XapI	RAATTY	2 cut(s)	288, 513
Zsp2I	ATGCAT	2 cut(s)	273, 583

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