Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0016652

Physical Location & Seq

Genomic Coordinates Reverse (-)

66387090 .. 66390368

Gene Structure 3279 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G042960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGGCTTCTTCACCTTCTCCCTACCAGACAGACGTTCCTCTTTCGCCGGACCCAGGTGAAATACCAGCGGCAATTCATGAAACCCAGTTCCCATGGGTGCCTGTTCAGATAGTGACTCATCCATCTCAGCTTCCTGCTGAGTTTCTGGAGCCTTCTGCTCACAGGCCATTGGTGATTGGGTTTGACTGCGAGGGAGTTGACCTCTGTCGAAATGGAACACTCTGTATCATGCAGCTTGCATTTCCAGAGGCTATATATCTGGTAGATGCCATTCAGGGAGGGGAGATGCTTATACAAGCCTGCAAGCCTGCACTTGAGTCTAGCCACGTCACAAAAGTTATTCATGACTGCAAGCGAGACAGTGAGGCCTTGTATTTTCAGTTCGGCATCAAGTTGAACAATGTTGTGGATACCCAGATTGCTTATTCGTTGATAGAAGAGCAAGAAGGTCGGAAAAGATTACCAGATGATTATATATCATTCGTTGGCCTCCTTGCTGATCCACGTTATTGTGGAGTATCTTATCTCGAGAAGGAAGAAGTCCGTTTTCTTCTTAGGCAGGACCCCAACTTTTGGACGTATAGACCTTTATCTGAACAGATGGTTCGTGCAGCTGCAGATGATGTTCGCTTTCTTCCATATATCTATTGCAGGATGATGGGGAAATTGAATCAACAGTCATTATGGTATCTTGCTGTTCGTGGTGCACTTTATTGTCGATGTTTTTGCATCACCAATAATGACTTTTCTGACTGGCCACCTCTCCCTACCGTTCCAGATAACCTACTAGTGGAGGGCAGTGCGCCCGAGGAAGAAATCCTTTCGGTTCTTGATGTTCCCCCAGGAAAAATGGGACGTGTAATTGGGAAAAGAGGGACTTCCATTCTGTCAATAAAAGAATCCTGCGATGCGGAAATCCTCATGGGAGGTGATAAGGGCCCACCAGACAAGGTGTTCATCATAGGACCAGTGAAGCAGGTGAGGAAAGCAGAAGCCATGTTAAGGGGAAGGATGCTGGACATGTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016458 GO:0019222 GO:0031047 GO:0032991 GO:0034587 GO:0034641 GO:0034660 GO:0035770 GO:0036464 GO:0042802 GO:0042803 GO:0043170 GO:0043186 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045495 GO:0046483 GO:0046983 GO:0048519 GO:0050789 GO:0060255 GO:0060293 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904 GO:1990923

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_pol_A_exo1 KH_1

Protein Analysis

342

Amino Acids

38.36

Weight (kDa)

4.99

Isoelectric Point (pI)

44.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_A_exo1	PF01612	36 - 223	1.1e-22	3'-5' exonuclease
KH_1	PF00013	277 - 335	6.4e-10	KH domain

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: OG0016652)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G25910 AT2G25910
fragaria_vesca	FvH4_2g32310
malus_domestica	MD08G1074400.v1.1
prunus_persica	Prupe.1G416100_v2.0.a1 Prupe.1G416100_v2.0.a1
pyrus_communis	pycom08g06140
rosa_chinensis	RchiOBHm_Chr6g0310381
rosa_laevigata	RLG00000010487
rosa_roxburghii	Rroxscaffold_7G00158600
rosa_rugosa	Rorug06G0379600
rosa_samantha	Rh6BG503400 Rh6CG508400
rosa_wichuraiana	Rw6G042960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	967
Acc36I	ACCTGC	1 cut(s)	967
AccB1I	GGYRCC	1 cut(s)	97
AccB7I	CCANNNNNTGG	1 cut(s)	573
AciI	CCGC	2 cut(s)	68, 911
AclWI	GGATC	1 cut(s)	494
AcoI	YGGCCR	1 cut(s)	755
AfaI	GTAC	1 cut(s)	1025
AfiI	CCNNNNNNNGG	4 cut(s)	53, 573, 790, 1002
AflIII	ACRYGT	2 cut(s)	856, 1020
AgsI	TTSAA	2 cut(s)	397, 670
AhlI	ACTAGT	1 cut(s)	787
AjiI	CACGTC	2 cut(s)	328, 857
AjnI	CCWGG	2 cut(s)	52, 841
AluBI	AGCT	3 cut(s)	130, 235, 614
AluI	AGCT	3 cut(s)	130, 235, 614
Alw21I	GWGCWC	1 cut(s)	709
Alw26I	GTCTC	1 cut(s)	351
Alw44I	GTGCAC	1 cut(s)	705
AlwI	GGATC	1 cut(s)	494
Ama87I	CYCGRG	2 cut(s)	527, 806
AoxI	GGCC	5 cut(s)	164, 366, 487, 755, 937
ApaI	GGGCCC	1 cut(s)	941
ApaLI	GTGCAC	1 cut(s)	705
ApeKI	GCWGC	3 cut(s)	232, 611, 614
AspLEI	GCGC	1 cut(s)	805
AspS9I	GGNCC	5 cut(s)	49, 562, 937, 938, 965
AsuHPI	GGTGA	6 cut(s)	3, 68, 184, 724, 941, 991
AvaI	CYCGRG	2 cut(s)	527, 806
AvaII	GGWCC	3 cut(s)	49, 562, 965
BaeGI	GKGCMC	2 cut(s)	709, 941
BalI	TGGCCA	1 cut(s)	757
BanI	GGYRCC	1 cut(s)	97
BanII	GRGCYC	1 cut(s)	941
Bbv12I	GWGCWC	1 cut(s)	709
BbvI	GCAGC	3 cut(s)	244, 601, 623
BccI	CCATC	3 cut(s)	130, 595, 652
BcgI	CGANNNNNNTGC	4 cut(s)	431, 465, 708, 742
BciT130I	CCWGG	2 cut(s)	54, 843
BciVI	GTATCC	1 cut(s)	403
BcoDI	GTCTC	1 cut(s)	351
BcuI	ACTAGT	1 cut(s)	787
BfaI	CTAG	2 cut(s)	321, 788
BfmI	CTRYAG	1 cut(s)	615
BfuAI	ACCTGC	1 cut(s)	967
BfuI	GTATCC	1 cut(s)	403
BisI	GCNGC	4 cut(s)	69, 233, 612, 615
BlsI	GCNGC	4 cut(s)	70, 234, 613, 616
Bme1390I	CCNGG	2 cut(s)	54, 843
Bme18I	GGWCC	3 cut(s)	49, 562, 965
BmeT110I	CYCGRG	2 cut(s)	527, 806
BmgBI	CACGTC	2 cut(s)	328, 857
BmgT120I	GGNCC	5 cut(s)	49, 562, 937, 938, 965
BmiI	GGNNCC	5 cut(s)	51, 99, 150, 564, 939
BmrFI	CCNGG	2 cut(s)	54, 843
BmrI	ACTGGG	1 cut(s)	79
BmsI	GCATC	6 cut(s)	256, 276, 396, 738, 898, 1002
BmuI	ACTGGG	1 cut(s)	79
BoxI	GACNNNNGTC	1 cut(s)	204
BplI	GAGNNNNNCTC	2 cut(s)	186, 218
BpmI	CTGGAG	1 cut(s)	167
BpuEI	CTTGAG	1 cut(s)	335
BsaJI	CCNNGG	4 cut(s)	52, 92, 807, 841
Bsc4I	CCNNNNNNNGG	4 cut(s)	53, 573, 790, 1002
Bse1I	ACTGG	3 cut(s)	85, 758, 968
BseBI	CCWGG	2 cut(s)	54, 843
BseDI	CCNNGG	4 cut(s)	52, 92, 807, 841
BseGI	GGATG	3 cut(s)	118, 660, 1017
BseLI	CCNNNNNNNGG	4 cut(s)	53, 573, 790, 1002
BseMII	CTCAG	2 cut(s)	129, 140
BseNI	ACTGG	3 cut(s)	85, 758, 968
BseSI	GKGCMC	2 cut(s)	709, 941
BseXI	GCAGC	3 cut(s)	244, 601, 623
BsgI	GTGCAG	2 cut(s)	294, 630
BshFI	GGCC	5 cut(s)	166, 368, 489, 757, 939
BshNI	GGYRCC	1 cut(s)	97
BsiHKAI	GWGCWC	1 cut(s)	709
BsiHKCI	CYCGRG	2 cut(s)	527, 806
BsiSI	CCGG	1 cut(s)	47
BslFI	GGGAC	2 cut(s)	867, 889
BslI	CCNNNNNNNGG	4 cut(s)	53, 573, 790, 1002
BsmAI	GTCTC	1 cut(s)	351
BsmFI	GGGAC	2 cut(s)	867, 889
BsnI	GGCC	5 cut(s)	166, 368, 489, 757, 939
BsoBI	CYCGRG	2 cut(s)	527, 806
Bsp120I	GGGCCC	1 cut(s)	937
Bsp1286I	GDGCHC	2 cut(s)	709, 941
Bsp143I	GATC	1 cut(s)	499
Bsp19I	CCATGG	1 cut(s)	92
BspACI	CCGC	2 cut(s)	68, 911
BspANI	GGCC	5 cut(s)	166, 368, 489, 757, 939
BspCNI	CTCAG	2 cut(s)	130, 139
BspHI	TCATGA	2 cut(s)	76, 343
BspLI	GGNNCC	5 cut(s)	51, 99, 150, 564, 939
BspMAI	CTGCAG	1 cut(s)	619
BspMI	ACCTGC	1 cut(s)	967
BspPI	GGATC	1 cut(s)	494
BspQI	GCTCTTC	1 cut(s)	432
BspT107I	GGYRCC	1 cut(s)	97
BsrI	ACTGG	3 cut(s)	85, 758, 968
BssECI	CCNNGG	4 cut(s)	52, 92, 807, 841
BssMI	GATC	1 cut(s)	499
BssT1I	CCWWGG	1 cut(s)	92
Bst2UI	CCWGG	2 cut(s)	54, 843
Bst4CI	ACNGT	3 cut(s)	362, 678, 772
Bst6I	CTCTTC	1 cut(s)	432
BstC8I	GCNNGC	5 cut(s)	237, 301, 305, 309, 353
BstDEI	CTNAG	3 cut(s)	126, 138, 554
BstDSI	CCRYGG	1 cut(s)	92
BstF5I	GGATG	3 cut(s)	118, 660, 1017
BstHHI	GCGC	1 cut(s)	805
BstKTI	GATC	1 cut(s)	502
BstMAI	GTCTC	1 cut(s)	351
BstMBI	GATC	1 cut(s)	499
BstNI	CCWGG	2 cut(s)	54, 843
BstNSI	RCATGY	1 cut(s)	1024
BstPAI	GACNNNNGTC	1 cut(s)	204
BstSCI	CCNGG	2 cut(s)	52, 841
BstSFI	CTRYAG	1 cut(s)	615
BstSLI	GKGCMC	2 cut(s)	709, 941
BstV1I	GCAGC	3 cut(s)	244, 601, 623
BsuI	GTATCC	1 cut(s)	403
BsuRI	GGCC	5 cut(s)	166, 368, 489, 757, 939
BtgI	CCRYGG	1 cut(s)	92
BtgZI	GCGATG	1 cut(s)	921
BtrI	CACGTC	2 cut(s)	328, 857
BtsCI	GGATG	3 cut(s)	118, 660, 1017
BtsI	GCAGTG	1 cut(s)	805
BtsIMutI	CAGTG	3 cut(s)	367, 805, 975
BveI	ACCTGC	1 cut(s)	967
Cac8I	GCNNGC	5 cut(s)	237, 301, 305, 309, 353
CciI	TCATGA	2 cut(s)	76, 343
CfoI	GCGC	1 cut(s)	805
Cfr13I	GGNCC	5 cut(s)	49, 562, 937, 938, 965
Csp6I	GTAC	1 cut(s)	1024
CviAII	CATG	7 cut(s)	77, 93, 229, 344, 922, 997, 1021
CviQI	GTAC	1 cut(s)	1024
DdeI	CTNAG	3 cut(s)	126, 138, 554
DpnI	GATC	1 cut(s)	501
DpnII	GATC	1 cut(s)	499
EaeI	YGGCCR	1 cut(s)	755
Eam1104I	CTCTTC	1 cut(s)	432
EarI	CTCTTC	1 cut(s)	432
Eco130I	CCWWGG	1 cut(s)	92
Eco147I	AGGCCT	1 cut(s)	368
Eco24I	GRGCYC	1 cut(s)	941
Eco47I	GGWCC	3 cut(s)	49, 562, 965
Eco88I	CYCGRG	2 cut(s)	527, 806
EcoO109I	RGGNCCY	2 cut(s)	562, 937
EcoRII	CCWGG	2 cut(s)	52, 841
EcoT14I	CCWWGG	1 cut(s)	92
EcoT38I	GRGCYC	1 cut(s)	941
ErhI	CCWWGG	1 cut(s)	92
FaeI	CATG	7 cut(s)	80, 96, 232, 347, 925, 1000, 1024
FalI	AAGNNNNNCTT	4 cut(s)	804, 836, 862, 894
FaqI	GGGAC	2 cut(s)	867, 889
FatI	CATG	7 cut(s)	76, 92, 228, 343, 921, 996, 1020
Fnu4HI	GCNGC	4 cut(s)	69, 233, 612, 615
FokI	GGATG	3 cut(s)	105, 667, 1024
FriOI	GRGCYC	1 cut(s)	941
Fsp4HI	GCNGC	4 cut(s)	69, 233, 612, 615
FspBI	CTAG	2 cut(s)	321, 788
GlaI	GCGC	1 cut(s)	804
GluI	GCNGC	4 cut(s)	69, 233, 612, 615
GsuI	CTGGAG	1 cut(s)	167
HaeIII	GGCC	5 cut(s)	166, 368, 489, 757, 939
HapII	CCGG	1 cut(s)	47
HhaI	GCGC	1 cut(s)	805
Hin1II	CATG	7 cut(s)	80, 96, 232, 347, 925, 1000, 1024
Hin6I	GCGC	1 cut(s)	803
HinP1I	GCGC	1 cut(s)	803
HincII	GTYRAC	1 cut(s)	199
HindII	GTYRAC	1 cut(s)	199
HinfI	GANTC	4 cut(s)	115, 317, 670, 899
HpaII	CCGG	1 cut(s)	47
HphI	GGTGA	6 cut(s)	3, 68, 184, 724, 941, 991
Hpy166II	GTNNAC	2 cut(s)	199, 707
Hpy188I	TCNGA	4 cut(s)	108, 453, 595, 751
Hpy188III	TCNNGA	8 cut(s)	77, 146, 245, 344, 527, 529, 776, 830
Hpy8I	GTNNAC	2 cut(s)	199, 707
HpyAV	CCTTC	5 cut(s)	24, 162, 440, 526, 1002
HpyCH4III	ACNGT	3 cut(s)	362, 678, 772
HpyCH4IV	ACGT	5 cut(s)	33, 327, 505, 578, 856
HpyF3I	CTNAG	3 cut(s)	126, 138, 554
HpySE526I	ACGT	5 cut(s)	33, 327, 505, 578, 856
Hsp92II	CATG	7 cut(s)	80, 96, 232, 347, 925, 1000, 1024
HspAI	GCGC	1 cut(s)	803
Kzo9I	GATC	1 cut(s)	499
LguI	GCTCTTC	1 cut(s)	432
LmnI	GCTCC	1 cut(s)	148
Lsp1109I	GCAGC	3 cut(s)	244, 601, 623
LweI	GCATC	6 cut(s)	256, 276, 396, 738, 898, 1002
MaeI	CTAG	2 cut(s)	321, 788
MaeII	ACGT	5 cut(s)	33, 327, 505, 578, 856
MaeIII	GTNAC	2 cut(s)	112, 328
MalI	GATC	1 cut(s)	501
MboI	GATC	1 cut(s)	499
MboII	GAAGA	5 cut(s)	449, 542, 548, 626, 824
MhlI	GDGCHC	2 cut(s)	709, 941
MlsI	TGGCCA	1 cut(s)	757
MluCI	AATT	3 cut(s)	72, 665, 861
MluNI	TGGCCA	1 cut(s)	757
MlyI	GAGTC	2 cut(s)	109, 326
MmeI	TCCRAC	1 cut(s)	431
Mox20I	TGGCCA	1 cut(s)	757
MscI	TGGCCA	1 cut(s)	757
MseI	TTAA	1 cut(s)	1001
Msp20I	TGGCCA	1 cut(s)	757
MspA1I	CMGCKG	2 cut(s)	68, 614
MspI	CCGG	1 cut(s)	47
MspR9I	CCNGG	2 cut(s)	54, 843
MvaI	CCWGG	2 cut(s)	54, 843
NcoI	CCATGG	1 cut(s)	92
NdeII	GATC	1 cut(s)	499
NlaIII	CATG	7 cut(s)	80, 96, 232, 347, 925, 1000, 1024
NlaIV	GGNNCC	5 cut(s)	51, 99, 150, 564, 939
NmuCI	GTSAC	2 cut(s)	112, 328
NspI	RCATGY	1 cut(s)	1024
PaeR7I	CTCGAG	1 cut(s)	527
PagI	TCATGA	2 cut(s)	76, 343
PaqCI	CACCTGC	1 cut(s)	967
PceI	AGGCCT	1 cut(s)	368
PciI	ACATGT	1 cut(s)	1020
PciSI	GCTCTTC	1 cut(s)	432
PfeI	GAWTC	2 cut(s)	670, 899
PflMI	CCANNNNNTGG	1 cut(s)	573
PkrI	GCNGC	4 cut(s)	70, 234, 613, 616
PleI	GAGTC	2 cut(s)	109, 325
PpsI	GAGTC	2 cut(s)	109, 325
PpuMI	RGGWCCY	1 cut(s)	562
PscI	ACATGT	1 cut(s)	1020
PshAI	GACNNNNGTC	1 cut(s)	204
Psp5II	RGGWCCY	1 cut(s)	562
Psp6I	CCWGG	2 cut(s)	52, 841
PspGI	CCWGG	2 cut(s)	52, 841
PspN4I	GGNNCC	5 cut(s)	51, 99, 150, 564, 939
PspOMI	GGGCCC	1 cut(s)	937
PspPI	GGNCC	5 cut(s)	49, 562, 937, 938, 965
PspPPI	RGGWCCY	1 cut(s)	562
PsrI	GAACNNNNNNTAC	2 cut(s)	365, 397
PstI	CTGCAG	1 cut(s)	619
PvuII	CAGCTG	1 cut(s)	614
RsaI	GTAC	1 cut(s)	1025
RsaNI	GTAC	1 cut(s)	1024
SapI	GCTCTTC	1 cut(s)	432
SaqAI	TTAA	1 cut(s)	1001
SatI	GCNGC	4 cut(s)	69, 233, 612, 615
Sau3AI	GATC	1 cut(s)	499
Sau96I	GGNCC	5 cut(s)	49, 562, 937, 938, 965
SchI	GAGTC	2 cut(s)	109, 326
ScrFI	CCNGG	2 cut(s)	54, 843
SduI	GDGCHC	2 cut(s)	709, 941
SfaNI	GCATC	6 cut(s)	256, 276, 396, 738, 898, 1002
SfcI	CTRYAG	1 cut(s)	615
Sfr274I	CTCGAG	1 cut(s)	527
SinI	GGWCC	3 cut(s)	49, 562, 965
SlaI	CTCGAG	1 cut(s)	527
SmlI	CTYRAG	2 cut(s)	314, 527
SmoI	CTYRAG	2 cut(s)	314, 527
SpeI	ACTAGT	1 cut(s)	787
Sse9I	AATT	3 cut(s)	72, 665, 861
SseBI	AGGCCT	1 cut(s)	368
SsiI	CCGC	2 cut(s)	68, 911
SspMI	CTAG	2 cut(s)	321, 788
StuI	AGGCCT	1 cut(s)	368
StyD4I	CCNGG	2 cut(s)	52, 841
StyI	CCWWGG	1 cut(s)	92
TaaI	ACNGT	3 cut(s)	362, 678, 772
TaiI	ACGT	5 cut(s)	36, 330, 508, 581, 859
TaqI	TCGA	3 cut(s)	208, 528, 718
TasI	AATT	3 cut(s)	72, 665, 861
TatI	WGTACW	1 cut(s)	1023
TauI	GCSGC	1 cut(s)	71
TfiI	GAWTC	2 cut(s)	670, 899
Tru1I	TTAA	1 cut(s)	1001
Tru9I	TTAA	1 cut(s)	1001
TscAI	CASTG	3 cut(s)	367, 805, 975
TseFI	GTSAC	2 cut(s)	112, 328
TseI	GCWGC	3 cut(s)	232, 611, 614
Tsp45I	GTSAC	2 cut(s)	112, 328
TspDTI	ATGAA	4 cut(s)	65, 93, 332, 946
TspGWI	ACGGA	1 cut(s)	533
TspRI	CASTG	3 cut(s)	367, 805, 975
Van91I	CCANNNNNTGG	1 cut(s)	573
VneI	GTGCAC	1 cut(s)	705
VpaK11BI	GGWCC	3 cut(s)	49, 562, 965
XceI	RCATGY	1 cut(s)	1024
XhoI	CTCGAG	1 cut(s)	527
XspI	CTAG	2 cut(s)	321, 788

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