Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0001899

Physical Location & Seq

Genomic Coordinates Reverse (-)

6217267 .. 6220875

Gene Structure 3609 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG081000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGCTTTTAGAGACAAGTGTAAGTTCTACACCATCAAATTCTACGAAGATCGCATCATAAGTATTGTGACTTCAGACGCACCTTCTGTGGATAAGTGGATTGATAATACCTATCGCGCTCATGGTGACAAGTTTCTTGTGGGCCTTGATACTGAATGGCAATGGGACCACGAAACTCGAGATTATGAAGTTGCAGTTCTTCAACTATGTGTGGGTCGCCATTGCCTTGTTTATCAATTGTCCCGCTCCAAAAGCACTCCTCAATCGCTCATCAAATTCCTCGGTGATGAAAACGTGACTTTCGTTGCTAAGGAAGTTCGAGAGGATGTGACTCGTTTGGCTCGTCAAGGATTACACGTTAGATGTGCTATGGATGTCGCTCATATGGGTGCAAAGAAATACAAAGACAATAGCTACAAGTCCATGGGATTGAAGAAGTTGGCGATGGAGTTTCTGAACAAGGAGATGGCGAAGGATAAGAAAATTACAAGGAGTCTTTGGGGTAATGAACGACTCAATCGCCTTCAAGTGGAGTATGCTTGCATAGATGCTTTTGTTTCGTTTCAACTAGGAGTGCAATTACAAATGCCCTACTCAAGTGAAGAGAGGATGAAATGCATCGCCGAGACAAAGAACTTTTGCATTAATGCATATTCATCAAGAAATTCCAACCGGAAGAAGTATCACATTATCAAAGAGGAAATAGCTGATATTGGCGATTATAGTAAGATTGTACCAACGGGTTGGTTCATCGAAGAAGAAGCGATCGATGTTGGGGATTACACCAAGATTGTACCAACAGGTTGGTTCATAGAAGAGGAAGCAATTGATATGGGCGACTACAACATTGAACCAACGTGCTGGGTTGAAGAGGAAGCGATTGATGTTGGGGATTACAGCAAGATTGTACCAACAGGACCACCAGCCACCGGTCAAGTTATAACTCGATTTGTCTAG

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

318

Amino Acids

36.72

Weight (kDa)

5.67

Isoelectric Point (pI)

40.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	44 - 194	5e-14	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)
AanI	TTATAA	1 cut(s)	941
AccBSI	CCGCTC	1 cut(s)	246
AccII	CGCG	1 cut(s)	117
AciI	CCGC	1 cut(s)	244
AcsI	RAATTY	3 cut(s)	38, 275, 664
AcuI	CTGAAG	1 cut(s)	57
AfaI	GTAC	3 cut(s)	735, 795, 909
AfiI	CCNNNNNNNGG	2 cut(s)	529, 929
AflIII	ACRYGT	1 cut(s)	355
AgeI	ACCGGT	1 cut(s)	929
AgsI	TTSAA	6 cut(s)	203, 433, 527, 566, 851, 869
AluBI	AGCT	2 cut(s)	414, 707
AluI	AGCT	2 cut(s)	414, 707
Alw26I	GTCTC	2 cut(s)	6, 620
Ama87I	CYCGRG	1 cut(s)	177
AoxI	GGCC	1 cut(s)	142
ApoI	RAATTY	3 cut(s)	38, 275, 664
AseI	ATTAAT	1 cut(s)	645
AsiGI	ACCGGT	1 cut(s)	929
AspLEI	GCGC	1 cut(s)	119
AspS9I	GGNCC	3 cut(s)	142, 166, 917
AsuHPI	GGTGA	2 cut(s)	137, 296
AvaI	CYCGRG	1 cut(s)	177
AvaII	GGWCC	2 cut(s)	166, 917
BarI	GAAGNNNNNNTAC	2 cut(s)	55, 87
BccI	CCATC	3 cut(s)	41, 439, 460
BcoDI	GTCTC	2 cut(s)	6, 620
BfaI	CTAG	2 cut(s)	569, 955
Bme18I	GGWCC	2 cut(s)	166, 917
BmeT110I	CYCGRG	1 cut(s)	177
BmgT120I	GGNCC	3 cut(s)	142, 166, 917
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
Bsa29I	ATCGAT	1 cut(s)	768
BsaJI	CCNNGG	2 cut(s)	280, 423
BsaWI	WCCGGW	2 cut(s)	672, 929
Bsc4I	CCNNNNNNNGG	2 cut(s)	529, 929
Bse118I	RCCGGY	1 cut(s)	929
Bse3DI	GCAATG	2 cut(s)	167, 220
BseCI	ATCGAT	1 cut(s)	768
BseDI	CCNNGG	2 cut(s)	280, 423
BseGI	GGATG	3 cut(s)	331, 379, 615
BseLI	CCNNNNNNNGG	2 cut(s)	529, 929
BseMI	GCAATG	2 cut(s)	167, 220
BseRI	GAGGAG	1 cut(s)	249
BseYI	CCCAGC	1 cut(s)	861
Bsh1236I	CGCG	1 cut(s)	117
Bsh1285I	CGRYCG	1 cut(s)	768
BshFI	GGCC	1 cut(s)	144
BshTI	ACCGGT	1 cut(s)	929
BshVI	ATCGAT	1 cut(s)	768
BsiEI	CGRYCG	1 cut(s)	768
BsiHKCI	CYCGRG	1 cut(s)	177
BsiSI	CCGG	2 cut(s)	673, 930
BslFI	GGGAC	2 cut(s)	179, 226
BslI	CCNNNNNNNGG	2 cut(s)	529, 929
BsmAI	GTCTC	2 cut(s)	6, 620
BsmFI	GGGAC	2 cut(s)	179, 226
BsnI	GGCC	1 cut(s)	144
BsoBI	CYCGRG	1 cut(s)	177
Bsp143I	GATC	2 cut(s)	49, 765
Bsp19I	CCATGG	1 cut(s)	423
BspACI	CCGC	1 cut(s)	244
BspANI	GGCC	1 cut(s)	144
BspDI	ATCGAT	1 cut(s)	768
BspFNI	CGCG	1 cut(s)	117
BspLI	GGNNCC	1 cut(s)	167
BsrBI	CCGCTC	1 cut(s)	246
BsrDI	GCAATG	2 cut(s)	167, 220
BsrFI	RCCGGY	1 cut(s)	929
BssAI	RCCGGY	1 cut(s)	929
BssECI	CCNNGG	2 cut(s)	280, 423
BssMI	GATC	2 cut(s)	49, 765
BssT1I	CCWWGG	1 cut(s)	423
Bst6I	CTCTTC	3 cut(s)	597, 810, 864
BstC8I	GCNNGC	1 cut(s)	541
BstDEI	CTNAG	1 cut(s)	309
BstDSI	CCRYGG	1 cut(s)	423
BstF5I	GGATG	3 cut(s)	331, 379, 615
BstFNI	CGCG	1 cut(s)	117
BstHHI	GCGC	1 cut(s)	119
BstKTI	GATC	2 cut(s)	52, 768
BstMAI	GTCTC	2 cut(s)	6, 620
BstMBI	GATC	2 cut(s)	49, 765
BstMCI	CGRYCG	1 cut(s)	768
BstMWI	GCNNNNNNNGC	1 cut(s)	252
BstUI	CGCG	1 cut(s)	117
BstXI	CCANNNNNNTGG	3 cut(s)	744, 804, 861
Bsu15I	ATCGAT	1 cut(s)	768
BsuRI	GGCC	1 cut(s)	144
BsuTUI	ATCGAT	1 cut(s)	768
BtgI	CCRYGG	1 cut(s)	423
BtgZI	GCGATG	2 cut(s)	458, 604
BtsCI	GGATG	3 cut(s)	331, 379, 615
Cac8I	GCNNGC	1 cut(s)	541
CfoI	GCGC	1 cut(s)	119
Cfr10I	RCCGGY	1 cut(s)	929
Cfr13I	GGNCC	3 cut(s)	142, 166, 917
ClaI	ATCGAT	1 cut(s)	768
CseI	GACGC	1 cut(s)	86
Csp6I	GTAC	3 cut(s)	734, 794, 908
CspAI	ACCGGT	1 cut(s)	929
CviAII	CATG	2 cut(s)	122, 424
CviJI	RGCY	6 cut(s)	5, 144, 341, 414, 707, 926
CviKI_1	RGCY	6 cut(s)	5, 144, 341, 414, 707, 926
CviQI	GTAC	3 cut(s)	734, 794, 908
DdeI	CTNAG	1 cut(s)	309
DpnI	GATC	2 cut(s)	51, 767
DpnII	GATC	2 cut(s)	49, 765
Eam1104I	CTCTTC	3 cut(s)	597, 810, 864
EarI	CTCTTC	3 cut(s)	597, 810, 864
Eco130I	CCWWGG	1 cut(s)	423
Eco47I	GGWCC	2 cut(s)	166, 917
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	2 cut(s)	125, 427
FaqI	GGGAC	2 cut(s)	179, 226
FatI	CATG	2 cut(s)	121, 423
FauI	CCCGC	1 cut(s)	251
FauNDI	CATATG	1 cut(s)	384
FokI	GGATG	3 cut(s)	338, 386, 622
FspBI	CTAG	2 cut(s)	569, 955
GlaI	GCGC	1 cut(s)	118
GsaI	CCCAGC	1 cut(s)	865
HaeIII	GGCC	1 cut(s)	144
HapII	CCGG	2 cut(s)	673, 930
HgaI	GACGC	1 cut(s)	86
HhaI	GCGC	1 cut(s)	119
Hin1II	CATG	2 cut(s)	125, 427
Hin6I	GCGC	1 cut(s)	117
HinP1I	GCGC	1 cut(s)	117
HinfI	GANTC	3 cut(s)	331, 493, 513
HpaII	CCGG	2 cut(s)	673, 930
HphI	GGTGA	2 cut(s)	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
HpyCH4IV	ACGT	3 cut(s)	294, 357, 857
HpyCH4V	TGCA	7 cut(s)	194, 392, 543, 577, 618, 642, 650
HpyF10VI	GCNNNNNNNGC	1 cut(s)	252
HpyF3I	CTNAG	1 cut(s)	309
HpySE526I	ACGT	3 cut(s)	294, 357, 857
Hsp92II	CATG	2 cut(s)	125, 427
HspAI	GCGC	1 cut(s)	117
Kzo9I	GATC	2 cut(s)	49, 765
LmnI	GCTCC	1 cut(s)	251
LpnPI	CCDG	6 cut(s)	686, 786, 847, 900, 936, 943
LweI	GCATC	3 cut(s)	63, 538, 627
MaeI	CTAG	2 cut(s)	569, 955
MaeII	ACGT	3 cut(s)	294, 357, 857
MaeIII	GTNAC	4 cut(s)	67, 125, 295, 328
MalI	GATC	2 cut(s)	51, 767
MbiI	CCGCTC	1 cut(s)	246
MboI	GATC	2 cut(s)	49, 765
MboII	GAAGA	9 cut(s)	59, 191, 445, 614, 688, 767, 770, 827, 881
MfeI	CAATTG	2 cut(s)	236, 825
MluCI	AATT	7 cut(s)	38, 236, 275, 483, 578, 664, 825
MlyI	GAGTC	3 cut(s)	325, 502, 507
MmeI	TCCRAC	1 cut(s)	693
MnlI	CCTC	7 cut(s)	270, 290, 316, 600, 691, 811, 865
Mph1103I	ATGCAT	2 cut(s)	620, 652
MseI	TTAA	1 cut(s)	645
MslI	CAYNNNNRTG	1 cut(s)	387
MspI	CCGG	2 cut(s)	673, 930
MunI	CAATTG	2 cut(s)	236, 825
MvnI	CGCG	1 cut(s)	117
MwoI	GCNNNNNNNGC	1 cut(s)	252
NcoI	CCATGG	1 cut(s)	423
NdeI	CATATG	1 cut(s)	384
NdeII	GATC	2 cut(s)	49, 765
NlaIII	CATG	2 cut(s)	125, 427
NlaIV	GGNNCC	1 cut(s)	167
NmeAIII	GCCGAG	1 cut(s)	649
NmuCI	GTSAC	4 cut(s)	67, 125, 295, 328
NsiI	ATGCAT	2 cut(s)	620, 652
PaeR7I	CTCGAG	1 cut(s)	177
PcsI	WCGNNNNNNNCGW	2 cut(s)	300, 340
PinAI	ACCGGT	1 cut(s)	929
Ple19I	CGATCG	1 cut(s)	768
PleI	GAGTC	3 cut(s)	325, 501, 507
PpsI	GAGTC	3 cut(s)	325, 501, 507
PshBI	ATTAAT	1 cut(s)	645
PsiI	TTATAA	1 cut(s)	941
PspFI	CCCAGC	1 cut(s)	861
PspN4I	GGNNCC	1 cut(s)	167
PspPI	GGNCC	3 cut(s)	142, 166, 917
PvuI	CGATCG	1 cut(s)	768
RsaI	GTAC	3 cut(s)	735, 795, 909
RsaNI	GTAC	3 cut(s)	734, 794, 908
RseI	CAYNNNNRTG	1 cut(s)	387
SaqAI	TTAA	1 cut(s)	645
Sau3AI	GATC	2 cut(s)	49, 765
Sau96I	GGNCC	3 cut(s)	142, 166, 917
SchI	GAGTC	3 cut(s)	325, 502, 507
SetI	ASST	8 cut(s)	85, 113, 297, 360, 416, 709, 805, 860
SfaNI	GCATC	3 cut(s)	63, 538, 627
Sfr274I	CTCGAG	1 cut(s)	177
SinI	GGWCC	2 cut(s)	166, 917
SlaI	CTCGAG	1 cut(s)	177
SmiMI	CAYNNNNRTG	1 cut(s)	387
SmlI	CTYRAG	2 cut(s)	177, 595
SmoI	CTYRAG	2 cut(s)	177, 595
Sse9I	AATT	7 cut(s)	38, 236, 275, 483, 578, 664, 825
SsiI	CCGC	1 cut(s)	244
SspMI	CTAG	2 cut(s)	569, 955
StyI	CCWWGG	1 cut(s)	423
TaiI	ACGT	3 cut(s)	297, 360, 860
TaqI	TCGA	5 cut(s)	178, 319, 753, 768, 946
TasI	AATT	7 cut(s)	38, 236, 275, 483, 578, 664, 825
Tru1I	TTAA	1 cut(s)	645
Tru9I	TTAA	1 cut(s)	645
TseFI	GTSAC	4 cut(s)	67, 125, 295, 328
Tsp45I	GTSAC	4 cut(s)	67, 125, 295, 328
TspDTI	ATGAA	7 cut(s)	201, 303, 522, 626, 645, 739, 799
VpaK11BI	GGWCC	2 cut(s)	166, 917
VspI	ATTAAT	1 cut(s)	645
XapI	RAATTY	3 cut(s)	38, 275, 664
XhoI	CTCGAG	1 cut(s)	177
XspI	CTAG	2 cut(s)	569, 955
Zsp2I	ATGCAT	2 cut(s)	620, 652

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