Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0001899

Physical Location & Seq

Genomic Coordinates Reverse (-)

6040542 .. 6041716

Gene Structure 1175 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016382

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGGCTTTTAGAGACAAGTGTAAGTTCTACACCATCAAATTCTACGAAGATCGCATCATAACTGTGGTGACTTCAGACGCACCTTCTGTGGATAAGTGGATTGATAATACTTATCGCGCTCATGGTGACAAGTTTCTTGTGGGCCTTGATACTGAATGGCAATGGGACCACGAAACTCGAGATTATGAAGTTGCAGTTCTTCAACTATGTGTGGGTCGCCATTGCCTTGTTTATCAATTGTCCCACTCCAAAAGCACTCCTCAATCGCTCATCAAATTCCTCGGTGATGAAAACGTGACTTTCGTTGCTAAGGAAGTTCGTGAGGATGTGACTCGTTTGGCTCGTCAAGGATTACACGTTAAATGTGCTATGGATGTCGCTCATATGGCTGCAAAGAAATACAAAGACAATAGCTACATGTCCATGGGATTGAAGAAGTTGGCGATGGAGTTTCTGAACAAGGAGGTGGAGAAGGATAAGAAAATTACAAGGAGTCTTTGGGGTAATGAACGACTCAATCGCCTTCAAGTGGAGTATGCTTGCATAGATGCTTTTGTTTCGTTTCAACTAGGAGTGCAATTACAAATGCCCTACTCAAGTGAAGAGAGAATGAAATGCATCGCCAAGACAAAGAACTTTTGCATTAATGCATATTCATCAAGAAATTCCAACCGGAAGAAGTATCACATTATCAAAGAGGAAATAGCTGATATTGGCGATTATAGTAAGATTGTACCAACGGGTTGGTTCATCGAAGAAGAAGCGATTGATGTTGGGGATTACAGCAAGATTGTACCAACAGGTTGGTTCATCGAAGAGGAAGCAATTGATATGGGCGACTACAACATTGTACCAACGTGCTGGGTTGAAGAGGAAGTTGGGGATTACAGCAAGATTGTACCAACAGGTTGGTTCATCGAAGAGGAAGCAATTGATATTGGCGACTACAACATTGTACCAACGTGCTGGGTTTAA

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

325

Amino Acids

37.6

Weight (kDa)

5.26

Isoelectric Point (pI)

45.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	44 - 194	1.9e-15	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

Tree File

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Publication-ready

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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)
AccII	CGCG	1 cut(s)	117
AcsI	RAATTY	3 cut(s)	38, 275, 664
AcuI	CTGAAG	1 cut(s)	57
AfaI	GTAC	5 cut(s)	735, 795, 852, 900, 957
AfiI	CCNNNNNNNGG	1 cut(s)	529
AflIII	ACRYGT	2 cut(s)	355, 417
AgsI	TTSAA	5 cut(s)	203, 433, 527, 566, 869
AjuI	GAANNNNNNNTTGG	2 cut(s)	861, 893
AluBI	AGCT	2 cut(s)	414, 707
AluI	AGCT	2 cut(s)	414, 707
Alw26I	GTCTC	1 cut(s)	6
Ama87I	CYCGRG	1 cut(s)	177
AoxI	GGCC	1 cut(s)	142
ApeKI	GCWGC	1 cut(s)	389
ApoI	RAATTY	3 cut(s)	38, 275, 664
AseI	ATTAAT	1 cut(s)	645
AspLEI	GCGC	1 cut(s)	119
AspS9I	GGNCC	2 cut(s)	142, 166
AsuHPI	GGTGA	3 cut(s)	79, 137, 296
AvaI	CYCGRG	1 cut(s)	177
AvaII	GGWCC	1 cut(s)	166
BbvI	GCAGC	1 cut(s)	376
BccI	CCATC	2 cut(s)	41, 439
BcoDI	GTCTC	1 cut(s)	6
BfaI	CTAG	1 cut(s)	569
BisI	GCNGC	1 cut(s)	390
BlsI	GCNGC	1 cut(s)	391
Bme18I	GGWCC	1 cut(s)	166
BmeT110I	CYCGRG	1 cut(s)	177
BmgT120I	GGNCC	2 cut(s)	142, 166
BmiI	GGNNCC	1 cut(s)	167
BmsI	GCATC	3 cut(s)	63, 538, 627
Bpu10I	CCTNAGC	1 cut(s)	309
BpuEI	CTTGAG	1 cut(s)	580
BsaJI	CCNNGG	2 cut(s)	280, 423
BsaWI	WCCGGW	1 cut(s)	672
Bsc4I	CCNNNNNNNGG	1 cut(s)	529
Bse3DI	GCAATG	2 cut(s)	167, 220
BseDI	CCNNGG	2 cut(s)	280, 423
BseGI	GGATG	2 cut(s)	331, 379
BseLI	CCNNNNNNNGG	1 cut(s)	529
BseMI	GCAATG	2 cut(s)	167, 220
BseRI	GAGGAG	1 cut(s)	249
BseXI	GCAGC	1 cut(s)	376
BseYI	CCCAGC	2 cut(s)	861, 966
Bsh1236I	CGCG	1 cut(s)	117
BshFI	GGCC	1 cut(s)	144
BsiHKCI	CYCGRG	1 cut(s)	177
BsiSI	CCGG	1 cut(s)	673
BslFI	GGGAC	2 cut(s)	179, 226
BslI	CCNNNNNNNGG	1 cut(s)	529
BsmAI	GTCTC	1 cut(s)	6
BsmFI	GGGAC	2 cut(s)	179, 226
BsnI	GGCC	1 cut(s)	144
BsoBI	CYCGRG	1 cut(s)	177
Bsp143I	GATC	1 cut(s)	49
Bsp19I	CCATGG	1 cut(s)	423
BspANI	GGCC	1 cut(s)	144
BspFNI	CGCG	1 cut(s)	117
BspLI	GGNNCC	1 cut(s)	167
BsrDI	GCAATG	2 cut(s)	167, 220
BssECI	CCNNGG	2 cut(s)	280, 423
BssMI	GATC	1 cut(s)	49
BssT1I	CCWWGG	1 cut(s)	423
Bst4CI	ACNGT	1 cut(s)	64
Bst6I	CTCTTC	4 cut(s)	597, 810, 864, 915
BstC8I	GCNNGC	1 cut(s)	541
BstDEI	CTNAG	1 cut(s)	309
BstDSI	CCRYGG	1 cut(s)	423
BstF5I	GGATG	2 cut(s)	331, 379
BstFNI	CGCG	1 cut(s)	117
BstHHI	GCGC	1 cut(s)	119
BstKTI	GATC	1 cut(s)	52
BstMAI	GTCTC	1 cut(s)	6
BstMBI	GATC	1 cut(s)	49
BstMWI	GCNNNNNNNGC	1 cut(s)	386
BstNSI	RCATGY	1 cut(s)	421
BstUI	CGCG	1 cut(s)	117
BstV1I	GCAGC	1 cut(s)	376
BstXI	CCANNNNNNTGG	5 cut(s)	744, 804, 861, 909, 966
BsuRI	GGCC	1 cut(s)	144
BtgI	CCRYGG	1 cut(s)	423
BtgZI	GCGATG	2 cut(s)	458, 604
BtsCI	GGATG	2 cut(s)	331, 379
Cac8I	GCNNGC	1 cut(s)	541
CfoI	GCGC	1 cut(s)	119
Cfr13I	GGNCC	2 cut(s)	142, 166
CseI	GACGC	1 cut(s)	86
Csp6I	GTAC	5 cut(s)	734, 794, 851, 899, 956
CviAII	CATG	3 cut(s)	122, 418, 424
CviJI	RGCY	6 cut(s)	5, 144, 341, 389, 414, 707
CviKI_1	RGCY	6 cut(s)	5, 144, 341, 389, 414, 707
CviQI	GTAC	5 cut(s)	734, 794, 851, 899, 956
DdeI	CTNAG	1 cut(s)	309
DpnI	GATC	1 cut(s)	51
DpnII	GATC	1 cut(s)	49
Eam1104I	CTCTTC	4 cut(s)	597, 810, 864, 915
EarI	CTCTTC	4 cut(s)	597, 810, 864, 915
Eco130I	CCWWGG	1 cut(s)	423
Eco47I	GGWCC	1 cut(s)	166
Eco57I	CTGAAG	1 cut(s)	57
Eco88I	CYCGRG	1 cut(s)	177
EcoT14I	CCWWGG	1 cut(s)	423
EcoT22I	ATGCAT	2 cut(s)	620, 652
ErhI	CCWWGG	1 cut(s)	423
FaeI	CATG	3 cut(s)	125, 421, 427
FaqI	GGGAC	2 cut(s)	179, 226
FatI	CATG	3 cut(s)	121, 417, 423
FauNDI	CATATG	1 cut(s)	384
Fnu4HI	GCNGC	1 cut(s)	390
FokI	GGATG	2 cut(s)	338, 386
Fsp4HI	GCNGC	1 cut(s)	390
FspBI	CTAG	1 cut(s)	569
GlaI	GCGC	1 cut(s)	118
GluI	GCNGC	1 cut(s)	390
GsaI	CCCAGC	2 cut(s)	865, 970
HaeIII	GGCC	1 cut(s)	144
HapII	CCGG	1 cut(s)	673
HgaI	GACGC	1 cut(s)	86
HhaI	GCGC	1 cut(s)	119
Hin1II	CATG	3 cut(s)	125, 421, 427
Hin6I	GCGC	1 cut(s)	117
HinP1I	GCGC	1 cut(s)	117
HinfI	GANTC	3 cut(s)	331, 493, 513
HpaII	CCGG	1 cut(s)	673
HphI	GGTGA	3 cut(s)	79, 137, 296
Hpy188I	TCNGA	2 cut(s)	76, 456
Hpy188III	TCNNGA	3 cut(s)	179, 320, 660
HpyAV	CCTTC	3 cut(s)	93, 466, 533
HpyCH4III	ACNGT	1 cut(s)	64
HpyCH4IV	ACGT	4 cut(s)	294, 357, 857, 962
HpyCH4V	TGCA	7 cut(s)	194, 392, 543, 577, 618, 642, 650
HpyF10VI	GCNNNNNNNGC	1 cut(s)	386
HpyF3I	CTNAG	1 cut(s)	309
HpySE526I	ACGT	4 cut(s)	294, 357, 857, 962
Hsp92II	CATG	3 cut(s)	125, 421, 427
HspAI	GCGC	1 cut(s)	117
Kzo9I	GATC	1 cut(s)	49
LpnPI	CCDG	5 cut(s)	686, 786, 847, 891, 952
Lsp1109I	GCAGC	1 cut(s)	376
LweI	GCATC	3 cut(s)	63, 538, 627
MaeI	CTAG	1 cut(s)	569
MaeII	ACGT	4 cut(s)	294, 357, 857, 962
MaeIII	GTNAC	4 cut(s)	67, 125, 295, 328
MalI	GATC	1 cut(s)	51
MboI	GATC	1 cut(s)	49
MfeI	CAATTG	3 cut(s)	236, 825, 930
MluCI	AATT	8 cut(s)	38, 236, 275, 483, 578, 664, 825, 930
MlyI	GAGTC	3 cut(s)	325, 502, 507
MmeI	TCCRAC	1 cut(s)	693
MnlI	CCTC	8 cut(s)	270, 290, 316, 457, 691, 811, 865, 916
Mph1103I	ATGCAT	2 cut(s)	620, 652
MseI	TTAA	3 cut(s)	360, 645, 973
MslI	CAYNNNNRTG	2 cut(s)	62, 422
MspI	CCGG	1 cut(s)	673
MunI	CAATTG	3 cut(s)	236, 825, 930
MvnI	CGCG	1 cut(s)	117
MwoI	GCNNNNNNNGC	1 cut(s)	386
NcoI	CCATGG	1 cut(s)	423
NdeI	CATATG	1 cut(s)	384
NdeII	GATC	1 cut(s)	49
NlaIII	CATG	3 cut(s)	125, 421, 427
NlaIV	GGNNCC	1 cut(s)	167
NmuCI	GTSAC	4 cut(s)	67, 125, 295, 328
NsiI	ATGCAT	2 cut(s)	620, 652
NspI	RCATGY	1 cut(s)	421
PaeR7I	CTCGAG	1 cut(s)	177
PciI	ACATGT	1 cut(s)	417
PcsI	WCGNNNNNNNCGW	2 cut(s)	300, 340
PkrI	GCNGC	1 cut(s)	391
PleI	GAGTC	3 cut(s)	325, 501, 507
PpsI	GAGTC	3 cut(s)	325, 501, 507
PscI	ACATGT	1 cut(s)	417
PshBI	ATTAAT	1 cut(s)	645
PspFI	CCCAGC	2 cut(s)	861, 966
PspN4I	GGNNCC	1 cut(s)	167
PspPI	GGNCC	2 cut(s)	142, 166
RsaI	GTAC	5 cut(s)	735, 795, 852, 900, 957
RsaNI	GTAC	5 cut(s)	734, 794, 851, 899, 956
RseI	CAYNNNNRTG	2 cut(s)	62, 422
SaqAI	TTAA	3 cut(s)	360, 645, 973
SatI	GCNGC	1 cut(s)	390
Sau3AI	GATC	1 cut(s)	49
Sau96I	GGNCC	2 cut(s)	142, 166
SchI	GAGTC	3 cut(s)	325, 502, 507
SfaNI	GCATC	3 cut(s)	63, 538, 627
Sfr274I	CTCGAG	1 cut(s)	177
SinI	GGWCC	1 cut(s)	166
SlaI	CTCGAG	1 cut(s)	177
SmiMI	CAYNNNNRTG	2 cut(s)	62, 422
SmlI	CTYRAG	2 cut(s)	177, 595
SmoI	CTYRAG	2 cut(s)	177, 595
Sse9I	AATT	8 cut(s)	38, 236, 275, 483, 578, 664, 825, 930
SspMI	CTAG	1 cut(s)	569
StyI	CCWWGG	1 cut(s)	423
TaaI	ACNGT	1 cut(s)	64
TaiI	ACGT	4 cut(s)	297, 360, 860, 965
TaqI	TCGA	4 cut(s)	178, 753, 813, 918
TasI	AATT	8 cut(s)	38, 236, 275, 483, 578, 664, 825, 930
Tru1I	TTAA	3 cut(s)	360, 645, 973
Tru9I	TTAA	3 cut(s)	360, 645, 973
TseFI	GTSAC	4 cut(s)	67, 125, 295, 328
TseI	GCWGC	1 cut(s)	389
Tsp45I	GTSAC	4 cut(s)	67, 125, 295, 328
TspDTI	ATGAA	8 cut(s)	201, 303, 522, 626, 645, 739, 799, 904
VpaK11BI	GGWCC	1 cut(s)	166
VspI	ATTAAT	1 cut(s)	645
XapI	RAATTY	3 cut(s)	38, 275, 664
XceI	RCATGY	1 cut(s)	421
XhoI	CTCGAG	1 cut(s)	177
XspI	CTAG	1 cut(s)	569
Zsp2I	ATGCAT	2 cut(s)	620, 652

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