Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001899

Physical Location & Seq

Genomic Coordinates Forward (+)

73311596 .. 73313804

Gene Structure 2209 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG522600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGGCCGTCAGCATAGTAGACCACGAATTGCCATATGACACCCACAATCTCTACGATGTAACATATTACAATGATCAAATCCACACCCTAGTCACTCACAGCGCACCCATGGTGGAATCCTGGCTCTCTGAAATCATGCCCATAATCAATGAAAACCCAATTGTAGGCCTGGACGTGGAGTGGCGTCCTAATTTTAACAGCAACAGCGACCACCCAATTGCGACCTTGCAGCTTTGTGTGGACCGTCGTTGCCTCATCTTCCAACTCATCCACGCCCAGAACATCCCACAATCACTCTTTGATTTTCTTGCTAATGGCAGTTACAAATTTGTGGGTGCTGGGATCCAGAATGATATAGAGAAACTCCTTCTGGACTATGACTTGAAGGTGACCAATACTGTTAATCTTGGGGCTTTGGCAGCGACTAAATTGGGTAAGAGCGAGTTGAAGAATGCTGGGTTGAAGGGCCTGTCTAAAGAGGTGCTTGGGAAGGAGCTGCAGAAGTCTAGGAAGGTGACATTGAGTAGGTGGGACAATGAGTGGCTCACTTGTAATCAGGTTCAGTATGCTTGTATTGATGCTTTTATTTCCTCTGAGATTGGGAGGCAGTTAACTGCCATGGCTTGA

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

208

Amino Acids

23.41

Weight (kDa)

5.3

Isoelectric Point (pI)

35.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	43 - 205	5.6e-16	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: 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)
AccI	GTMKAC	1 cut(s)	18
AclWI	GGATC	2 cut(s)	337, 350
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	326
AcyI	GRCGYC	1 cut(s)	184
AfiI	CCNNNNNNNGG	2 cut(s)	164, 175
AgsI	TTSAA	3 cut(s)	385, 448, 463
AjiI	CACGTC	1 cut(s)	175
AjnI	CCWGG	2 cut(s)	119, 168
AluBI	AGCT	2 cut(s)	232, 496
AluI	AGCT	2 cut(s)	232, 496
AlwI	GGATC	2 cut(s)	337, 350
AoxI	GGCC	3 cut(s)	3, 166, 466
ApeKI	GCWGC	3 cut(s)	229, 419, 496
ApoI	RAATTY	1 cut(s)	326
AspLEI	GCGC	1 cut(s)	104
AspS9I	GGNCC	2 cut(s)	241, 466
AsuHPI	GGTGA	2 cut(s)	400, 526
AvaII	GGWCC	1 cut(s)	241
BamHI	GGATCC	1 cut(s)	342
BbvI	GCAGC	3 cut(s)	241, 431, 483
BciT130I	CCWGG	2 cut(s)	121, 170
BclI	TGATCA	1 cut(s)	73
BfaI	CTAG	2 cut(s)	89, 507
BfmI	CTRYAG	1 cut(s)	497
BisI	GCNGC	3 cut(s)	230, 420, 497
BlsI	GCNGC	3 cut(s)	231, 421, 498
Bme1390I	CCNGG	2 cut(s)	121, 170
Bme18I	GGWCC	1 cut(s)	241
BmgBI	CACGTC	1 cut(s)	175
BmgT120I	GGNCC	2 cut(s)	241, 466
BmiI	GGNNCC	1 cut(s)	344
BmrFI	CCNGG	2 cut(s)	121, 170
BmsI	GCATC	1 cut(s)	568
BsaHI	GRCGYC	1 cut(s)	184
BsaJI	CCNNGG	2 cut(s)	108, 618
Bsc4I	CCNNNNNNNGG	2 cut(s)	164, 175
BseBI	CCWGG	2 cut(s)	121, 170
BseDI	CCNNGG	2 cut(s)	108, 618
BseGI	GGATG	2 cut(s)	267, 282
BseLI	CCNNNNNNNGG	2 cut(s)	164, 175
BseMII	CTCAG	1 cut(s)	585
BseXI	GCAGC	3 cut(s)	241, 431, 483
BseYI	CCCAGC	2 cut(s)	338, 455
BshFI	GGCC	3 cut(s)	5, 168, 468
BslFI	GGGAC	1 cut(s)	545
BslI	CCNNNNNNNGG	2 cut(s)	164, 175
BsmFI	GGGAC	1 cut(s)	545
BsmI	GAATGC	1 cut(s)	457
BsnI	GGCC	3 cut(s)	5, 168, 468
Bsp143I	GATC	2 cut(s)	73, 342
Bsp19I	CCATGG	2 cut(s)	108, 618
BspANI	GGCC	3 cut(s)	5, 168, 468
BspCNI	CTCAG	1 cut(s)	586
BspLI	GGNNCC	1 cut(s)	344
BspMAI	CTGCAG	1 cut(s)	501
BspPI	GGATC	2 cut(s)	337, 350
BssECI	CCNNGG	2 cut(s)	108, 618
BssMI	GATC	2 cut(s)	73, 342
BssNI	GRCGYC	1 cut(s)	184
BssT1I	CCWWGG	2 cut(s)	108, 618
Bst2UI	CCWGG	2 cut(s)	121, 170
Bst4CI	ACNGT	2 cut(s)	245, 400
BstACI	GRCGYC	1 cut(s)	184
BstDEI	CTNAG	1 cut(s)	594
BstDSI	CCRYGG	2 cut(s)	108, 618
BstEII	GGTNACC	1 cut(s)	388
BstF5I	GGATG	2 cut(s)	267, 282
BstHHI	GCGC	1 cut(s)	104
BstKTI	GATC	2 cut(s)	76, 345
BstMBI	GATC	2 cut(s)	73, 342
BstMWI	GCNNNNNNNGC	1 cut(s)	419
BstNI	CCWGG	2 cut(s)	121, 170
BstPI	GGTNACC	1 cut(s)	388
BstSCI	CCNGG	2 cut(s)	119, 168
BstSFI	CTRYAG	1 cut(s)	497
BstV1I	GCAGC	3 cut(s)	241, 431, 483
BstX2I	RGATCY	1 cut(s)	342
BstYI	RGATCY	1 cut(s)	342
BsuRI	GGCC	3 cut(s)	5, 168, 468
BtgI	CCRYGG	2 cut(s)	108, 618
BtrI	CACGTC	1 cut(s)	175
BtsCI	GGATG	2 cut(s)	267, 282
CfoI	GCGC	1 cut(s)	104
Cfr13I	GGNCC	2 cut(s)	241, 466
CseI	GACGC	1 cut(s)	173
CviAII	CATG	3 cut(s)	109, 136, 619
CviJI	RGCY	9 cut(s)	5, 124, 168, 232, 413, 468, 496, 544, 623
CviKI_1	RGCY	9 cut(s)	5, 124, 168, 232, 413, 468, 496, 544, 623
DdeI	CTNAG	1 cut(s)	594
DpnI	GATC	2 cut(s)	75, 344
DpnII	GATC	2 cut(s)	73, 342
EaeI	YGGCCR	1 cut(s)	3
Eco130I	CCWWGG	2 cut(s)	108, 618
Eco147I	AGGCCT	1 cut(s)	168
Eco47I	GGWCC	1 cut(s)	241
Eco91I	GGTNACC	1 cut(s)	388
EcoO109I	RGGNCCY	1 cut(s)	466
EcoO65I	GGTNACC	1 cut(s)	388
EcoRII	CCWGG	2 cut(s)	119, 168
EcoT14I	CCWWGG	2 cut(s)	108, 618
ErhI	CCWWGG	2 cut(s)	108, 618
FaeI	CATG	3 cut(s)	112, 139, 622
FalI	AAGNNNNNCTT	2 cut(s)	468, 500
FaqI	GGGAC	1 cut(s)	545
FatI	CATG	3 cut(s)	108, 135, 618
FauNDI	CATATG	1 cut(s)	34
FbaI	TGATCA	1 cut(s)	73
FblI	GTMKAC	1 cut(s)	18
Fnu4HI	GCNGC	3 cut(s)	230, 420, 497
FokI	GGATG	2 cut(s)	254, 269
Fsp4HI	GCNGC	3 cut(s)	230, 420, 497
FspBI	CTAG	2 cut(s)	89, 507
GlaI	GCGC	1 cut(s)	103
GluI	GCNGC	3 cut(s)	230, 420, 497
GsaI	CCCAGC	2 cut(s)	342, 459
HaeIII	GGCC	3 cut(s)	5, 168, 468
HgaI	GACGC	1 cut(s)	173
HhaI	GCGC	1 cut(s)	104
Hin1I	GRCGYC	1 cut(s)	184
Hin1II	CATG	3 cut(s)	112, 139, 622
Hin6I	GCGC	1 cut(s)	102
HinP1I	GCGC	1 cut(s)	102
HincII	GTYRAC	1 cut(s)	612
HindII	GTYRAC	1 cut(s)	612
HinfI	GANTC	1 cut(s)	116
HpaI	GTTAAC	1 cut(s)	612
HphI	GGTGA	2 cut(s)	400, 526
Hpy166II	GTNNAC	3 cut(s)	19, 241, 612
Hpy188I	TCNGA	2 cut(s)	130, 595
Hpy188III	TCNNGA	2 cut(s)	346, 371
Hpy8I	GTNNAC	3 cut(s)	19, 241, 612
Hpy99I	CGWCG	1 cut(s)	249
HpyAV	CCTTC	5 cut(s)	377, 379, 457, 484, 505
HpyCH4III	ACNGT	2 cut(s)	245, 400
HpyCH4IV	ACGT	1 cut(s)	174
HpyCH4V	TGCA	2 cut(s)	229, 499
HpyF10VI	GCNNNNNNNGC	1 cut(s)	419
HpyF3I	CTNAG	1 cut(s)	594
HpySE526I	ACGT	1 cut(s)	174
Hsp92I	GRCGYC	1 cut(s)	184
Hsp92II	CATG	3 cut(s)	112, 139, 622
HspAI	GCGC	1 cut(s)	102
Ksp22I	TGATCA	1 cut(s)	73
KspAI	GTTAAC	1 cut(s)	612
Kzo9I	GATC	2 cut(s)	73, 342
LmnI	GCTCC	1 cut(s)	493
Lsp1109I	GCAGC	3 cut(s)	241, 431, 483
LweI	GCATC	1 cut(s)	568
MaeI	CTAG	2 cut(s)	89, 507
MaeII	ACGT	1 cut(s)	174
MaeIII	GTNAC	5 cut(s)	58, 91, 320, 388, 514
MalI	GATC	2 cut(s)	75, 344
MboI	GATC	2 cut(s)	73, 342
MboII	GAAGA	2 cut(s)	250, 460
MfeI	CAATTG	2 cut(s)	159, 216
MflI	RGATCY	1 cut(s)	342
MluCI	AATT	6 cut(s)	26, 159, 190, 216, 326, 428
MmeI	TCCRAC	1 cut(s)	286
MnlI	CCTC	4 cut(s)	263, 472, 597, 601
MseI	TTAA	3 cut(s)	195, 402, 611
MspR9I	CCNGG	2 cut(s)	121, 170
MunI	CAATTG	2 cut(s)	159, 216
Mva1269I	GAATGC	1 cut(s)	457
MvaI	CCWGG	2 cut(s)	121, 170
MwoI	GCNNNNNNNGC	1 cut(s)	419
NcoI	CCATGG	2 cut(s)	108, 618
NdeI	CATATG	1 cut(s)	34
NdeII	GATC	2 cut(s)	73, 342
NlaIII	CATG	3 cut(s)	112, 139, 622
NlaIV	GGNNCC	1 cut(s)	344
NmuCI	GTSAC	3 cut(s)	91, 388, 514
PceI	AGGCCT	1 cut(s)	168
PctI	GAATGC	1 cut(s)	457
PfeI	GAWTC	1 cut(s)	116
PkrI	GCNGC	3 cut(s)	231, 421, 498
Psp6I	CCWGG	2 cut(s)	119, 168
PspEI	GGTNACC	1 cut(s)	388
PspFI	CCCAGC	2 cut(s)	338, 455
PspGI	CCWGG	2 cut(s)	119, 168
PspN4I	GGNNCC	1 cut(s)	344
PspPI	GGNCC	2 cut(s)	241, 466
PstI	CTGCAG	1 cut(s)	501
PsuI	RGATCY	1 cut(s)	342
SaqAI	TTAA	3 cut(s)	195, 402, 611
SatI	GCNGC	3 cut(s)	230, 420, 497
Sau3AI	GATC	2 cut(s)	73, 342
Sau96I	GGNCC	2 cut(s)	241, 466
ScrFI	CCNGG	2 cut(s)	121, 170
SetI	ASST	9 cut(s)	177, 227, 234, 390, 483, 498, 516, 530, 561
SfaNI	GCATC	1 cut(s)	568
SfcI	CTRYAG	1 cut(s)	497
SinI	GGWCC	1 cut(s)	241
Sse9I	AATT	6 cut(s)	26, 159, 190, 216, 326, 428
SseBI	AGGCCT	1 cut(s)	168
SspMI	CTAG	2 cut(s)	89, 507
StuI	AGGCCT	1 cut(s)	168
StyD4I	CCNGG	2 cut(s)	119, 168
StyI	CCWWGG	2 cut(s)	108, 618
TaaI	ACNGT	2 cut(s)	245, 400
TaiI	ACGT	1 cut(s)	177
TasI	AATT	6 cut(s)	26, 159, 190, 216, 326, 428
TfiI	GAWTC	1 cut(s)	116
Tru1I	TTAA	3 cut(s)	195, 402, 611
Tru9I	TTAA	3 cut(s)	195, 402, 611
TseFI	GTSAC	3 cut(s)	91, 388, 514
TseI	GCWGC	3 cut(s)	229, 419, 496
Tsp45I	GTSAC	3 cut(s)	91, 388, 514
TspDTI	ATGAA	1 cut(s)	165
VpaK11BI	GGWCC	1 cut(s)	241
XapI	RAATTY	1 cut(s)	326
XmiI	GTMKAC	1 cut(s)	18
XspI	CTAG	2 cut(s)	89, 507

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