Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0002972

Physical Location & Seq

Genomic Coordinates Reverse (-)

17403504 .. 17404808

Gene Structure 1305 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G008070.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGACAGCCCGGATTTGGTTTCATGGAACACAATGATTGCTGGGTATTCAGAAAATGAGGATGGGGAAAAGGCGATGAATTTGTTTGCCCGGTTGAAAAGATTGTGTTTTCTTAAACCAGATGAACATACTTATGCAGCTATCATATCTGCAGCAGGAACTGCACTAGTGTCTATGTACTTCAAGAACAGCGAAACGGATAGTGCTCAAAAGGCATTTTATTCTATTTCTGAGAAGGATGTTGTTCTCTGGACTGAGATGATCATGGGTTATTCAAGATTGGCTAATGGGGAGAGTGCAATTAAGTTCTTCAAAGAAATGTGCAAGGAAAGCCATAAGGTTGACAGCTTTGCTCTGAGTGGAGCTTTGAGTGCTTGTTCCGACCTGGCCATGTTAAAACAAGGTGAGATGATTCACTCGCAGGCCTTAAAAACAGGATTTGATGTTGAAATGTCTGTATGTGGGAGTCTGGTGGATATGTATGCAAAAAACGGTTGCCTTGAATCTGCTTATTGTATATTTTCCCAAGTTGTGGAGCCTGATTTGAAATGTTGGAACTCGATGCTTGGGGGATATAGTCAACATGGCATGGCAGAAGAAGCATTGAAGCTCTTTTTTGAGATCCAAAAACATGGTCTCGTACCAGACCAAGAGCTTATTATCAAGTCACCATTTAATGAAGATAATCTTGAACTGTGGAGAACTTTGCTGAGCTCGTGCGTCATCAATAAGAACTTGGAGATAGGAGTTCATGCAGCAGAGCATGTTCTAAAGGTTGATGCAGAAGACAGTGCAACACATATCTTGCTTTCAAATCTCTATGCTGCTGCCGGAAAATGGGATAAGGTTGTAGAAATAAGGAGAAAGGTTAAAGAACTGACGTTAGAGAAGGATCCTGGGCTGAGCTGGATTGAGGATAAGAAGAATATTCAGGTATTCAGTTCTGGTGTTCAATCTAAGGAAGAGGTTGGTGAAGCCGAAGATGCACTGCATTGGCTACAAGGAAACATGGTACAATCTCAAAGAGATGAACTTGATGAACCTATTTATACCACATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LRRNT_2 LRR_8 PPR PPR_2

Protein Analysis

352

Amino Acids

39.36

Weight (kDa)

4.88

Isoelectric Point (pI)

42.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	4 - 51	8.3e-10	PPR repeat family
PPR	PF01535	7 - 35	5.5e-06	PPR repeat
PPR_2	PF13041	79 - 126	7.2e-07	PPR repeat family
PPR_2	PF13041	180 - 217	4.8e-07	PPR repeat family
PPR	PF01535	184 - 213	2.6e-08	PPR repeat
E_motif	PF20431	245 - 305	2.3e-16	E motif

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: OG0002972)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G50420 AT3G50420
fragaria_vesca	FvH4_1g14840
malus_domestica	MD06G1092000.v1.1 MD15G1276000.v1.1
prunus_persica	Prupe.7G142000_v2.0.a1
pyrus_communis	pycom06g08800 pycom15g23890
rosa_chinensis	RchiOBHm_Chr1g0329891 RchiOBHm_Chr2g0103801
rosa_laevigata	RLG00000017261 RLG00000017264 RLG00000029855 RLG00000029861
rosa_multiflora	Rmu_sc0000112.1_g000010 Rmu_sc0000112.1_g000024 Rmu_sc0000112.1_g000025 Rmu_sc0002081.1_g000002 Rmu_sc0002081.1_g000010 Rmu_sc0006774.1_g000014
rosa_roxburghii	Rroxscaffold_2G00139300 Rroxscaffold_2G00139350 Rroxscaffold_4G00320530
rosa_rugosa	Rorug01G0084100 Rorug02G0117300
rosa_samantha	Rh1AG102000 Rh1BG081200 Rh1CG097500 Rh1DG105100 Rh2AG166400 Rh2BG173600 Rh2CG172300 Rh2DG171800
rosa_wichuraiana	Rw0G002030 Rw0G006910 Rw1G008070 Rw1G008120 Rw2G013030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	532
AclWI	GGATC	3 cut(s)	616, 887, 900
AcoI	YGGCCR	1 cut(s)	387
AcsI	RAATTY	1 cut(s)	79
AfaI	GTAC	3 cut(s)	179, 642, 1014
AfiI	CCNNNNNNNGG	3 cut(s)	16, 532, 837
AhlI	ACTAGT	1 cut(s)	166
AjnI	CCWGG	2 cut(s)	384, 895
AluBI	AGCT	7 cut(s)	140, 348, 365, 610, 655, 714, 906
AluI	AGCT	7 cut(s)	140, 348, 365, 610, 655, 714, 906
Alw21I	GWGCWC	2 cut(s)	208, 716
Alw26I	GTCTC	1 cut(s)	641
AlwI	GGATC	3 cut(s)	616, 887, 900
AlwNI	CAGNNNCTG	1 cut(s)	161
AoxI	GGCC	2 cut(s)	387, 423
ApeKI	GCWGC	5 cut(s)	137, 152, 755, 824, 827
ApoI	RAATTY	1 cut(s)	79
ArsI	GACNNNNNNTTYG	2 cut(s)	619, 651
AsuC2I	CCSGG	2 cut(s)	11, 91
AsuHPI	GGTGA	3 cut(s)	416, 660, 983
BalI	TGGCCA	1 cut(s)	389
BamHI	GGATCC	1 cut(s)	892
BanII	GRGCYC	1 cut(s)	716
BauI	CACGAG	1 cut(s)	715
BbsI	GAAGAC	1 cut(s)	792
Bbv12I	GWGCWC	2 cut(s)	208, 716
BbvI	GCAGC	5 cut(s)	149, 164, 767, 811, 814
BccI	CCATC	1 cut(s)	56
BciT130I	CCWGG	2 cut(s)	386, 897
BclI	TGATCA	1 cut(s)	261
BcnI	CCSGG	2 cut(s)	11, 91
BcoDI	GTCTC	1 cut(s)	641
BcuI	ACTAGT	1 cut(s)	166
BfaI	CTAG	1 cut(s)	167
BfmI	CTRYAG	1 cut(s)	150
BisI	GCNGC	5 cut(s)	138, 153, 756, 825, 828
BlpI	GCTNAGC	2 cut(s)	710, 902
BlsI	GCNGC	5 cut(s)	139, 154, 757, 826, 829
Bme1390I	CCNGG	4 cut(s)	11, 91, 386, 897
BmiI	GGNNCC	2 cut(s)	537, 894
BmrFI	CCNGG	4 cut(s)	11, 91, 386, 897
BmsI	GCATC	3 cut(s)	552, 769, 973
BpiI	GAAGAC	1 cut(s)	792
Bpu1102I	GCTNAGC	2 cut(s)	710, 902
BpuMI	CCSGG	2 cut(s)	11, 91
BsaI	GGTCTC	1 cut(s)	641
BsaJI	CCNNGG	1 cut(s)	896
Bsc4I	CCNNNNNNNGG	3 cut(s)	16, 532, 837
BseBI	CCWGG	2 cut(s)	386, 897
BseDI	CCNNGG	1 cut(s)	896
BseGI	GGATG	2 cut(s)	67, 244
BseLI	CCNNNNNNNGG	3 cut(s)	16, 532, 837
BseMII	CTCAG	5 cut(s)	222, 246, 347, 701, 893
BseXI	GCAGC	5 cut(s)	149, 164, 767, 811, 814
BseYI	CCCAGC	1 cut(s)	41
BsgI	GTGCAG	1 cut(s)	147
BshFI	GGCC	2 cut(s)	389, 425
BsiHKAI	GWGCWC	2 cut(s)	208, 716
BsiSI	CCGG	3 cut(s)	11, 91, 831
BslI	CCNNNNNNNGG	3 cut(s)	16, 532, 837
BsmAI	GTCTC	1 cut(s)	641
BsnI	GGCC	2 cut(s)	389, 425
Bso31I	GGTCTC	1 cut(s)	641
Bsp1286I	GDGCHC	2 cut(s)	208, 716
Bsp143I	GATC	3 cut(s)	261, 621, 892
Bsp1720I	GCTNAGC	2 cut(s)	710, 902
BspANI	GGCC	2 cut(s)	389, 425
BspCNI	CTCAG	5 cut(s)	223, 247, 348, 702, 894
BspLI	GGNNCC	2 cut(s)	537, 894
BspMAI	CTGCAG	1 cut(s)	154
BspPI	GGATC	3 cut(s)	616, 887, 900
BspTNI	GGTCTC	1 cut(s)	641
BssECI	CCNNGG	1 cut(s)	896
BssMI	GATC	3 cut(s)	261, 621, 892
BssSI	CACGAG	1 cut(s)	715
Bst2BI	CACGAG	1 cut(s)	715
Bst2UI	CCWGG	2 cut(s)	386, 897
Bst4CI	ACNGT	3 cut(s)	494, 696, 791
Bst6I	CTCTTC	1 cut(s)	957
BstAPI	GCANNNNNTGC	1 cut(s)	161
BstC8I	GCNNGC	1 cut(s)	423
BstDEI	CTNAG	6 cut(s)	231, 255, 356, 710, 902, 957
BstF5I	GGATG	2 cut(s)	67, 244
BstKTI	GATC	3 cut(s)	264, 624, 895
BstMAI	GTCTC	1 cut(s)	641
BstMBI	GATC	3 cut(s)	261, 621, 892
BstMWI	GCNNNNNNNGC	6 cut(s)	161, 212, 330, 371, 599, 983
BstNI	CCWGG	2 cut(s)	386, 897
BstNSI	RCATGY	1 cut(s)	767
BstSCI	CCNGG	4 cut(s)	9, 89, 384, 895
BstSFI	CTRYAG	1 cut(s)	150
BstV1I	GCAGC	5 cut(s)	149, 164, 767, 811, 814
BstV2I	GAAGAC	1 cut(s)	792
BstX2I	RGATCY	2 cut(s)	621, 892
BstXI	CCANNNNNNTGG	1 cut(s)	632
BstYI	RGATCY	2 cut(s)	621, 892
BsuRI	GGCC	2 cut(s)	389, 425
BtgZI	GCGATG	1 cut(s)	89
BtsCI	GGATG	2 cut(s)	67, 244
BtsI	GCAGTG	1 cut(s)	986
BtsIMutI	CAGTG	2 cut(s)	796, 986
Cac8I	GCNNGC	1 cut(s)	423
CaiI	CAGNNNCTG	1 cut(s)	161
CseI	GACGC	1 cut(s)	709
Csp6I	GTAC	3 cut(s)	178, 641, 1013
CviAII	CATG	9 cut(s)	24, 265, 391, 584, 589, 632, 752, 764, 1009
CviQI	GTAC	3 cut(s)	178, 641, 1013
DdeI	CTNAG	6 cut(s)	231, 255, 356, 710, 902, 957
DpnI	GATC	3 cut(s)	263, 623, 894
DpnII	GATC	3 cut(s)	261, 621, 892
EaeI	YGGCCR	1 cut(s)	387
Eam1104I	CTCTTC	1 cut(s)	957
EarI	CTCTTC	1 cut(s)	957
Ecl136II	GAGCTC	1 cut(s)	714
Eco147I	AGGCCT	1 cut(s)	425
Eco24I	GRGCYC	1 cut(s)	716
Eco31I	GGTCTC	1 cut(s)	641
Eco53kI	GAGCTC	1 cut(s)	714
EcoICRI	GAGCTC	1 cut(s)	714
EcoRII	CCWGG	2 cut(s)	384, 895
EcoT38I	GRGCYC	1 cut(s)	716
FaeI	CATG	9 cut(s)	27, 268, 394, 587, 592, 635, 755, 767, 1012
FalI	AAGNNNNNCTT	2 cut(s)	672, 704
FatI	CATG	9 cut(s)	23, 264, 390, 583, 588, 631, 751, 763, 1008
FbaI	TGATCA	1 cut(s)	261
Fnu4HI	GCNGC	5 cut(s)	138, 153, 756, 825, 828
FokI	GGATG	2 cut(s)	74, 251
FriOI	GRGCYC	1 cut(s)	716
Fsp4HI	GCNGC	5 cut(s)	138, 153, 756, 825, 828
FspBI	CTAG	1 cut(s)	167
GluI	GCNGC	5 cut(s)	138, 153, 756, 825, 828
GsaI	CCCAGC	1 cut(s)	45
HaeIII	GGCC	2 cut(s)	389, 425
HapII	CCGG	3 cut(s)	11, 91, 831
HgaI	GACGC	1 cut(s)	709
Hin1II	CATG	9 cut(s)	27, 268, 394, 587, 592, 635, 755, 767, 1012
HincII	GTYRAC	2 cut(s)	343, 581
HindII	GTYRAC	2 cut(s)	343, 581
HinfI	GANTC	3 cut(s)	412, 466, 503
HpaII	CCGG	3 cut(s)	11, 91, 831
HphI	GGTGA	3 cut(s)	416, 660, 983
Hpy166II	GTNNAC	2 cut(s)	343, 581
Hpy188I	TCNGA	4 cut(s)	52, 232, 357, 382
Hpy188III	TCNNGA	4 cut(s)	184, 250, 276, 689
Hpy8I	GTNNAC	2 cut(s)	343, 581
HpyAV	CCTTC	2 cut(s)	229, 883
HpyCH4III	ACNGT	3 cut(s)	494, 696, 791
HpyCH4IV	ACGT	1 cut(s)	881
HpyF10VI	GCNNNNNNNGC	6 cut(s)	161, 212, 330, 371, 599, 983
HpyF3I	CTNAG	6 cut(s)	231, 255, 356, 710, 902, 957
HpySE526I	ACGT	1 cut(s)	881
Hsp92II	CATG	9 cut(s)	27, 268, 394, 587, 592, 635, 755, 767, 1012
Ksp22I	TGATCA	1 cut(s)	261
Kzo9I	GATC	3 cut(s)	261, 621, 892
LmnI	GCTCC	2 cut(s)	362, 535
Lsp1109I	GCAGC	5 cut(s)	149, 164, 767, 811, 814
LweI	GCATC	3 cut(s)	552, 769, 973
MaeI	CTAG	1 cut(s)	167
MaeII	ACGT	1 cut(s)	881
MaeIII	GTNAC	1 cut(s)	666
MalI	GATC	3 cut(s)	263, 623, 894
MboI	GATC	3 cut(s)	261, 621, 892
MboII	GAAGA	7 cut(s)	301, 608, 692, 797, 934, 974, 992
MflI	RGATCY	2 cut(s)	621, 892
MhlI	GDGCHC	2 cut(s)	208, 716
MlsI	TGGCCA	1 cut(s)	389
MluCI	AATT	2 cut(s)	79, 300
MluNI	TGGCCA	1 cut(s)	389
MlyI	GAGTC	1 cut(s)	475
MmeI	TCCRAC	2 cut(s)	405, 533
MnlI	CCTC	3 cut(s)	52, 907, 958
Mox20I	TGGCCA	1 cut(s)	389
MscI	TGGCCA	1 cut(s)	389
MseI	TTAA	6 cut(s)	114, 303, 395, 428, 675, 870
MslI	CAYNNNNRTG	1 cut(s)	132
Msp20I	TGGCCA	1 cut(s)	389
MspI	CCGG	3 cut(s)	11, 91, 831
MspR9I	CCNGG	4 cut(s)	11, 91, 386, 897
MvaI	CCWGG	2 cut(s)	386, 897
MwoI	GCNNNNNNNGC	6 cut(s)	161, 212, 330, 371, 599, 983
NciI	CCSGG	2 cut(s)	11, 91
NdeII	GATC	3 cut(s)	261, 621, 892
NlaIII	CATG	9 cut(s)	27, 268, 394, 587, 592, 635, 755, 767, 1012
NlaIV	GGNNCC	2 cut(s)	537, 894
NmuCI	GTSAC	1 cut(s)	666
NspI	RCATGY	1 cut(s)	767
PceI	AGGCCT	1 cut(s)	425
PfeI	GAWTC	2 cut(s)	412, 503
PflMI	CCANNNNNTGG	1 cut(s)	532
PkrI	GCNGC	5 cut(s)	139, 154, 757, 826, 829
PleI	GAGTC	1 cut(s)	474
PpsI	GAGTC	1 cut(s)	474
Psp124BI	GAGCTC	1 cut(s)	716
Psp6I	CCWGG	2 cut(s)	384, 895
PspFI	CCCAGC	1 cut(s)	41
PspGI	CCWGG	2 cut(s)	384, 895
PspN4I	GGNNCC	2 cut(s)	537, 894
PstI	CTGCAG	1 cut(s)	154
PstNI	CAGNNNCTG	1 cut(s)	161
PsuI	RGATCY	2 cut(s)	621, 892
RsaI	GTAC	3 cut(s)	179, 642, 1014
RsaNI	GTAC	3 cut(s)	178, 641, 1013
RseI	CAYNNNNRTG	1 cut(s)	132
SacI	GAGCTC	1 cut(s)	716
SaqAI	TTAA	6 cut(s)	114, 303, 395, 428, 675, 870
SatI	GCNGC	5 cut(s)	138, 153, 756, 825, 828
Sau3AI	GATC	3 cut(s)	261, 621, 892
SchI	GAGTC	1 cut(s)	475
ScrFI	CCNGG	4 cut(s)	11, 91, 386, 897
SduI	GDGCHC	2 cut(s)	208, 716
SfaNI	GCATC	3 cut(s)	552, 769, 973
SfcI	CTRYAG	1 cut(s)	150
SmiMI	CAYNNNNRTG	1 cut(s)	132
SpeI	ACTAGT	1 cut(s)	166
Sse9I	AATT	2 cut(s)	79, 300
SseBI	AGGCCT	1 cut(s)	425
SspI	AATATT	1 cut(s)	928
SspMI	CTAG	1 cut(s)	167
SstI	GAGCTC	1 cut(s)	716
StuI	AGGCCT	1 cut(s)	425
StyD4I	CCNGG	4 cut(s)	9, 89, 384, 895
TaaI	ACNGT	3 cut(s)	494, 696, 791
TaiI	ACGT	1 cut(s)	884
TaqI	TCGA	1 cut(s)	560
TasI	AATT	2 cut(s)	79, 300
TatI	WGTACW	1 cut(s)	177
TfiI	GAWTC	2 cut(s)	412, 503
Tru1I	TTAA	6 cut(s)	114, 303, 395, 428, 675, 870
Tru9I	TTAA	6 cut(s)	114, 303, 395, 428, 675, 870
TscAI	CASTG	2 cut(s)	796, 993
TseFI	GTSAC	1 cut(s)	666
TseI	GCWGC	5 cut(s)	137, 152, 755, 824, 827
Tsp45I	GTSAC	1 cut(s)	666
TspDTI	ATGAA	7 cut(s)	12, 92, 138, 693, 740, 1044, 1053
TspGWI	ACGGA	1 cut(s)	212
TspRI	CASTG	2 cut(s)	796, 993
Van91I	CCANNNNNTGG	1 cut(s)	532
XapI	RAATTY	1 cut(s)	79
XceI	RCATGY	1 cut(s)	767
XspI	CTAG	1 cut(s)	167

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