Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0007239

Physical Location & Seq

Genomic Coordinates Reverse (-)

62550683 .. 62552195

Gene Structure 1513 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00127100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGCCTGAAAGGAACTCGATTACTTGGTCTTCCATGGTTTCTATGTATACCAAGCATGGGAAAAGCGAAGAAGCATTGAAGGTGTTTTCGGAGTTCCATAGGAGTTCTGATGGGAGACCGAATGAGTATACCTTGCCTAGTGTTATTCGGGCTTGTACGCAATTTGGAGGGGTTGATCAAGGTGCCCAAGTGCATTGTTTTGTTGTTAAGACTGGTTTTGGTATGGAAGTCTTTGTGGGTACTTCTTTGATTGATTTTTATGTAAAAATGGGGGATATAGAAGAGGCGAGATTGATTTTTGATCATTTAAAAGTTAAAAGTGCGGATACTTGGACTATAGTTATAGTAGGTCCTGGAAATGAAATTCTAGAGTGGTTCGCTCATCAAACTGCGGCACCTTCTGTAATACATGAACGCCACCAGTTGCCACCGCTATTTCTGTATGGGCAACATATTACTTTCATTGTGAAAGTAGATGGCGAAGAGTTGCACTTTAAGCCTGCCTTTAGCTTCGAGGAAAGGCTGCAACGAGCTGTGTTGGATCAGCTTTGGTTTCACTATGAGACTTCTCTCTCTTCATACTCTTATAATGTAGAGACAGCAGAGTGGCGACAGTTAGACAAGGGCTTGAAGCTGAATTGTAGGGATCTCTACAAGGGTCATTGCTGTTTACCTAGCTTTGGATTTGGGATGAAGGTTTGCCTTCTTAAGGACCCTGTTACTGAGATAAGCCTTATTTCCTACTGCCAGCTACTTCTAACAAAGACACCAAATAAGGCAAGAGCTCCGACCACCACAAACTCCGCCTTGTAG

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

DYW_deaminase PPR PPR_2

Protein Analysis

270

Amino Acids

30.68

Weight (kDa)

6.41

Isoelectric Point (pI)

34.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	5 - 52	1.1e-06	PPR repeat family
PPR	PF01535	7 - 34	1.2e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007239)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39530
fragaria_vesca	FvH4_1g22400 FvH4_1g22550
malus_domestica	MD01G1019600.v1.1
prunus_persica	Prupe.6G172600_v2.0.a1
pyrus_communis	pycom01g04910
rosa_chinensis	RchiOBHm_Chr2g0116541
rosa_laevigata	RLG00000018286
rosa_multiflora	Rmu_sc0001287.1_g000020 Rmu_sc0001287.1_g000021 Rmu_sc0003255.1_g000001 Rmu_sc0003255.1_g000019 Rmu_sc0004191.1_g000031
rosa_roxburghii	Rroxscaffold_2G00127080 Rroxscaffold_2G00127100
rosa_rugosa	Rorug02G0207400 Rorug02G0207500
rosa_samantha	Rh2AG262400 Rh2BG273600 Rh2BG273900 Rh2BG274000 Rh2DG265300 Rh2DG270600 Rh2DG289100
rosa_wichuraiana	Rw2G020660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	588
AccB1I	GGYRCC	2 cut(s)	182, 394
AccI	GTMKAC	2 cut(s)	47, 128
AciI	CCGC	4 cut(s)	323, 392, 431, 804
AclWI	GGATC	2 cut(s)	549, 654
AcsI	RAATTY	1 cut(s)	363
AfaI	GTAC	2 cut(s)	157, 241
AfiI	CCNNNNNNNGG	3 cut(s)	57, 680, 709
AflII	CTTAAG	1 cut(s)	707
AgsI	TTSAA	2 cut(s)	79, 631
AjnI	CCWGG	1 cut(s)	352
AluBI	AGCT	7 cut(s)	510, 533, 547, 634, 678, 751, 785
AluI	AGCT	7 cut(s)	510, 533, 547, 634, 678, 751, 785
Alw21I	GWGCWC	1 cut(s)	787
Alw26I	GTCTC	3 cut(s)	109, 557, 590
AlwI	GGATC	2 cut(s)	549, 654
ApeKI	GCWGC	1 cut(s)	523
ApoI	RAATTY	1 cut(s)	363
AspS9I	GGNCC	2 cut(s)	350, 712
AvaII	GGWCC	2 cut(s)	350, 712
BaeGI	GKGCMC	1 cut(s)	187
BanI	GGYRCC	2 cut(s)	182, 394
BanII	GRGCYC	1 cut(s)	787
BbsI	GAAGAC	1 cut(s)	21
Bbv12I	GWGCWC	1 cut(s)	787
BbvI	GCAGC	1 cut(s)	510
BccI	CCATC	2 cut(s)	104, 470
BciT130I	CCWGG	1 cut(s)	354
BciVI	GTATCC	1 cut(s)	319
BclI	TGATCA	2 cut(s)	175, 301
BcoDI	GTCTC	3 cut(s)	109, 557, 590
BfaI	CTAG	3 cut(s)	138, 368, 675
BfmI	CTRYAG	1 cut(s)	336
BfrI	CTTAAG	1 cut(s)	707
BfuI	GTATCC	1 cut(s)	319
BisI	GCNGC	2 cut(s)	393, 524
BlsI	GCNGC	2 cut(s)	394, 525
Bme1390I	CCNGG	1 cut(s)	354
Bme18I	GGWCC	2 cut(s)	350, 712
BmgT120I	GGNCC	2 cut(s)	350, 712
BmiI	GGNNCC	3 cut(s)	184, 396, 714
BmrFI	CCNGG	1 cut(s)	354
BpiI	GAAGAC	1 cut(s)	21
BsaI	GGTCTC	1 cut(s)	109
BsaJI	CCNNGG	1 cut(s)	33
Bsc4I	CCNNNNNNNGG	3 cut(s)	57, 680, 709
Bse1I	ACTGG	2 cut(s)	217, 421
Bse3DI	GCAATG	1 cut(s)	661
BseBI	CCWGG	1 cut(s)	354
BseDI	CCNNGG	1 cut(s)	33
BseGI	GGATG	1 cut(s)	696
BseLI	CCNNNNNNNGG	3 cut(s)	57, 680, 709
BseMI	GCAATG	1 cut(s)	661
BseMII	CTCAG	1 cut(s)	714
BseNI	ACTGG	2 cut(s)	217, 421
BseSI	GKGCMC	1 cut(s)	187
BseXI	GCAGC	1 cut(s)	510
BshNI	GGYRCC	2 cut(s)	182, 394
BsiHKAI	GWGCWC	1 cut(s)	787
BslI	CCNNNNNNNGG	3 cut(s)	57, 680, 709
BsmAI	GTCTC	3 cut(s)	109, 557, 590
Bso31I	GGTCTC	1 cut(s)	109
Bsp1286I	GDGCHC	2 cut(s)	187, 787
Bsp143I	GATC	4 cut(s)	175, 301, 541, 646
Bsp19I	CCATGG	1 cut(s)	33
BspACI	CCGC	4 cut(s)	323, 392, 431, 804
BspCNI	CTCAG	1 cut(s)	715
BspLI	GGNNCC	3 cut(s)	184, 396, 714
BspPI	GGATC	2 cut(s)	549, 654
BspT107I	GGYRCC	2 cut(s)	182, 394
BspTI	CTTAAG	1 cut(s)	707
BspTNI	GGTCTC	1 cut(s)	109
BsrDI	GCAATG	1 cut(s)	661
BsrI	ACTGG	2 cut(s)	217, 421
BssECI	CCNNGG	1 cut(s)	33
BssMI	GATC	4 cut(s)	175, 301, 541, 646
BssNAI	GTATAC	2 cut(s)	48, 129
BssT1I	CCWWGG	1 cut(s)	33
Bst1107I	GTATAC	2 cut(s)	48, 129
Bst2UI	CCWGG	1 cut(s)	354
Bst4CI	ACNGT	1 cut(s)	615
Bst6I	CTCTTC	3 cut(s)	276, 477, 580
BstAFI	CTTAAG	1 cut(s)	707
BstC8I	GCNNGC	2 cut(s)	501, 749
BstDEI	CTNAG	1 cut(s)	723
BstDSI	CCRYGG	1 cut(s)	33
BstENI	CCTNNNNNAGG	1 cut(s)	707
BstF5I	GGATG	1 cut(s)	696
BstKTI	GATC	4 cut(s)	178, 304, 544, 649
BstMAI	GTCTC	3 cut(s)	109, 557, 590
BstMBI	GATC	4 cut(s)	175, 301, 541, 646
BstMWI	GCNNNNNNNGC	1 cut(s)	496
BstNI	CCWGG	1 cut(s)	354
BstSCI	CCNGG	1 cut(s)	352
BstSFI	CTRYAG	1 cut(s)	336
BstSLI	GKGCMC	1 cut(s)	187
BstV1I	GCAGC	1 cut(s)	510
BstV2I	GAAGAC	1 cut(s)	21
BstX2I	RGATCY	1 cut(s)	646
BstYI	RGATCY	1 cut(s)	646
BstZ17I	GTATAC	2 cut(s)	48, 129
BsuI	GTATCC	1 cut(s)	319
BtgI	CCRYGG	1 cut(s)	33
BtsCI	GGATG	1 cut(s)	696
Cac8I	GCNNGC	2 cut(s)	501, 749
Cfr13I	GGNCC	2 cut(s)	350, 712
Csp6I	GTAC	2 cut(s)	156, 240
CviAII	CATG	3 cut(s)	34, 56, 410
CviQI	GTAC	2 cut(s)	156, 240
DdeI	CTNAG	1 cut(s)	723
DpnI	GATC	4 cut(s)	177, 303, 543, 648
DpnII	GATC	4 cut(s)	175, 301, 541, 646
DraI	TTTAAA	1 cut(s)	309
Eam1104I	CTCTTC	3 cut(s)	276, 477, 580
EarI	CTCTTC	3 cut(s)	276, 477, 580
EciI	GGCGGA	1 cut(s)	793
Ecl136II	GAGCTC	1 cut(s)	785
Eco130I	CCWWGG	1 cut(s)	33
Eco24I	GRGCYC	1 cut(s)	787
Eco31I	GGTCTC	1 cut(s)	109
Eco47I	GGWCC	2 cut(s)	350, 712
Eco53kI	GAGCTC	1 cut(s)	785
EcoICRI	GAGCTC	1 cut(s)	785
EcoNI	CCTNNNNNAGG	1 cut(s)	707
EcoO109I	RGGNCCY	2 cut(s)	350, 712
EcoRII	CCWGG	1 cut(s)	352
EcoT14I	CCWWGG	1 cut(s)	33
EcoT38I	GRGCYC	1 cut(s)	787
ErhI	CCWWGG	1 cut(s)	33
FaeI	CATG	3 cut(s)	37, 59, 413
FalI	AAGNNNNNCTT	2 cut(s)	488, 520
FatI	CATG	3 cut(s)	33, 55, 409
FbaI	TGATCA	2 cut(s)	175, 301
FblI	GTMKAC	2 cut(s)	47, 128
Fnu4HI	GCNGC	2 cut(s)	393, 524
FokI	GGATG	1 cut(s)	703
FriOI	GRGCYC	1 cut(s)	787
Fsp4HI	GCNGC	2 cut(s)	393, 524
FspBI	CTAG	3 cut(s)	138, 368, 675
GluI	GCNGC	2 cut(s)	393, 524
Hin1II	CATG	3 cut(s)	37, 59, 413
Hpy166II	GTNNAC	3 cut(s)	48, 129, 671
Hpy188I	TCNGA	3 cut(s)	91, 109, 789
Hpy188III	TCNNGA	1 cut(s)	368
Hpy8I	GTNNAC	3 cut(s)	48, 129, 671
HpyAV	CCTTC	4 cut(s)	73, 408, 688, 713
HpyCH4III	ACNGT	1 cut(s)	615
HpyCH4V	TGCA	3 cut(s)	193, 490, 526
HpyF10VI	GCNNNNNNNGC	1 cut(s)	496
HpyF3I	CTNAG	1 cut(s)	723
Hsp92II	CATG	3 cut(s)	37, 59, 413
Ksp22I	TGATCA	2 cut(s)	175, 301
Kzo9I	GATC	4 cut(s)	175, 301, 541, 646
LmnI	GCTCC	1 cut(s)	790
LpnPI	CCDG	8 cut(s)	18, 198, 339, 366, 434, 513, 729, 761
Lsp1109I	GCAGC	1 cut(s)	510
MaeI	CTAG	3 cut(s)	138, 368, 675
MaeIII	GTNAC	1 cut(s)	718
MalI	GATC	4 cut(s)	177, 303, 543, 648
MboI	GATC	4 cut(s)	175, 301, 541, 646
MboII	GAAGA	5 cut(s)	21, 80, 293, 494, 567
MflI	RGATCY	1 cut(s)	646
MhlI	GDGCHC	2 cut(s)	187, 787
MluCI	AATT	3 cut(s)	161, 363, 637
MmeI	TCCRAC	2 cut(s)	519, 812
MnlI	CCTC	3 cut(s)	161, 277, 508
MseI	TTAA	5 cut(s)	207, 308, 315, 495, 708
MspCI	CTTAAG	1 cut(s)	707
MspR9I	CCNGG	1 cut(s)	354
MvaI	CCWGG	1 cut(s)	354
MwoI	GCNNNNNNNGC	1 cut(s)	496
NcoI	CCATGG	1 cut(s)	33
NdeII	GATC	4 cut(s)	175, 301, 541, 646
NlaIII	CATG	3 cut(s)	37, 59, 413
NlaIV	GGNNCC	3 cut(s)	184, 396, 714
PfoI	TCCNGGA	1 cut(s)	352
PkrI	GCNGC	2 cut(s)	394, 525
PpuMI	RGGWCCY	2 cut(s)	350, 712
PsiI	TTATAA	1 cut(s)	588
Psp124BI	GAGCTC	1 cut(s)	787
Psp5II	RGGWCCY	2 cut(s)	350, 712
Psp6I	CCWGG	1 cut(s)	352
PspGI	CCWGG	1 cut(s)	352
PspN4I	GGNNCC	3 cut(s)	184, 396, 714
PspPI	GGNCC	2 cut(s)	350, 712
PspPPI	RGGWCCY	2 cut(s)	350, 712
PsuI	RGATCY	1 cut(s)	646
RsaI	GTAC	2 cut(s)	157, 241
RsaNI	GTAC	2 cut(s)	156, 240
SacI	GAGCTC	1 cut(s)	787
SaqAI	TTAA	5 cut(s)	207, 308, 315, 495, 708
SatI	GCNGC	2 cut(s)	393, 524
Sau3AI	GATC	4 cut(s)	175, 301, 541, 646
Sau96I	GGNCC	2 cut(s)	350, 712
ScrFI	CCNGG	1 cut(s)	354
SduI	GDGCHC	2 cut(s)	187, 787
SfcI	CTRYAG	1 cut(s)	336
SinI	GGWCC	2 cut(s)	350, 712
SmlI	CTYRAG	1 cut(s)	707
SmoI	CTYRAG	1 cut(s)	707
Sse9I	AATT	3 cut(s)	161, 363, 637
SsiI	CCGC	4 cut(s)	323, 392, 431, 804
SspMI	CTAG	3 cut(s)	138, 368, 675
SstI	GAGCTC	1 cut(s)	787
StyD4I	CCNGG	1 cut(s)	352
StyI	CCWWGG	1 cut(s)	33
TaaI	ACNGT	1 cut(s)	615
TaqI	TCGA	2 cut(s)	17, 513
TaqII	GACCGA	1 cut(s)	133
TasI	AATT	3 cut(s)	161, 363, 637
TauI	GCSGC	1 cut(s)	395
Tru1I	TTAA	5 cut(s)	207, 308, 315, 495, 708
Tru9I	TTAA	5 cut(s)	207, 308, 315, 495, 708
TseI	GCWGC	1 cut(s)	523
TspDTI	ATGAA	5 cut(s)	375, 426, 451, 567, 707
Vha464I	CTTAAG	1 cut(s)	707
VpaK11BI	GGWCC	2 cut(s)	350, 712
XagI	CCTNNNNNAGG	1 cut(s)	707
XapI	RAATTY	1 cut(s)	363
XbaI	TCTAGA	1 cut(s)	367
XmiI	GTMKAC	2 cut(s)	47, 128
XspI	CTAG	3 cut(s)	138, 368, 675

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