Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0002156

Physical Location & Seq

Genomic Coordinates Reverse (-)

2355104 .. 2355597

Gene Structure 494 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ36039

Sequence Viewer

CDS Protein Promoter (2k)

Length: 381 bp

ATGCAGACTGAGGGAATAAAAGGAGATAGGGTGACAAAGGTGGAGGTTGTATCTGTCTGCGGATATCTAGGAGCTCTTGGTCTTGCAAAGTGGACCCATGTTTATATCGAAAAAAATGAAATTAACTGTGACATGCGGCTCGGGACAGCTTTGTTTGACATGTTTGGTAGATGTGGCGACCCTCAAAGTGCAATGAAGGTGTTCGATAACATGGCAAGAAGAGATGTTTCTGCTTGGACAGCAGCCATTGGAGCAATGGTTATGCAAGGAAATGGGGAGCGAGCTCTAGAGCTTTTTGATGACATGCTTAAGCAAGGGGTGAAACCAGATGAAGTAGTCTTTGAGGCAGTACCAAGTACTAACAGCATGCAGCCATATTAG

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

126

Amino Acids

13.9

Weight (kDa)

4.93

Isoelectric Point (pI)

19.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	74 - 113	4.2e-09	PPR repeat family

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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Orthologous Genes (Group: OG0002156)

Species	Orthologous Gene IDs
malus_domestica	MD04G1086800.v1.1 MD15G1179900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0319101 RchiOBHm_Chr1g0328871 RchiOBHm_Chr1g0329071 RchiOBHm_Chr1g0329121 RchiOBHm_Chr1g0329131 RchiOBHm_Chr3g0482401 RchiOBHm_Chr4g0386521 RchiOBHm_Chr4g0386661 RchiOBHm_Chr4g0386761 RchiOBHm_Chr4g0386771 RchiOBHm_Chr4g0386901 RchiOBHm_Chr4g0387051 RchiOBHm_Chr4g0387251 RchiOBHm_Chr4g0387261 RchiOBHm_Chr4g0389041 RchiOBHm_Chr4g0389121 RchiOBHm_Chr4g0389181 RchiOBHm_Chr4g0389271 RchiOBHm_Chr4g0389371 RchiOBHm_Chr4g0394511
rosa_laevigata	RLG00000009193 RLG00000009989 RLG00000009995 RLG00000010148 RLG00000010150 RLG00000010159
rosa_multiflora	Rmu_co8024538.1_g000001 Rmu_sc0002221.1_g000001 Rmu_sc0005233.1_g000001 Rmu_sc0006648.1_g000009 Rmu_sc0008380.1_g000013 Rmu_sc0018886.1_g000001 Rmu_sc0040950.1_g000001
rosa_roxburghii	Rroxscaffold_5G00335380
rosa_rugosa	Rorug03G0307400 Rorug03G0308300 Rorug03G0322800 Rorug03G0365000.1 Rorug03G0365100.1 Rorug05G0232600
rosa_samantha	Rh4CG016200
rosa_wichuraiana	Rw4G000010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	60, 136
AfaI	GTAC	2 cut(s)	351, 358
AflII	CTTAAG	1 cut(s)	308
AflIII	ACRYGT	1 cut(s)	159
AluBI	AGCT	4 cut(s)	74, 149, 284, 292
AluI	AGCT	4 cut(s)	74, 149, 284, 292
Alw21I	GWGCWC	2 cut(s)	76, 286
Ama87I	CYCGRG	1 cut(s)	140
ApeKI	GCWGC	2 cut(s)	242, 370
Asp700I	GAANNNNTTC	1 cut(s)	200
AspS9I	GGNCC	1 cut(s)	93
AsuHPI	GGTGA	2 cut(s)	43, 331
AvaI	CYCGRG	1 cut(s)	140
AvaII	GGWCC	1 cut(s)	93
BanII	GRGCYC	2 cut(s)	76, 286
Bbv12I	GWGCWC	2 cut(s)	76, 286
BbvI	GCAGC	1 cut(s)	254
BfaI	CTAG	2 cut(s)	68, 287
BfrI	CTTAAG	1 cut(s)	308
BisI	GCNGC	3 cut(s)	137, 243, 371
BlsI	GCNGC	3 cut(s)	138, 244, 372
BmcAI	AGTACT	1 cut(s)	358
Bme18I	GGWCC	1 cut(s)	93
BmeT110I	CYCGRG	1 cut(s)	140
BmgT120I	GGNCC	1 cut(s)	93
BmiI	GGNNCC	1 cut(s)	95
BsaXI	ACNNNNNCTCC	4 cut(s)	15, 45, 243, 273
Bse3DI	GCAATG	2 cut(s)	198, 261
BseMI	GCAATG	2 cut(s)	198, 261
BseXI	GCAGC	1 cut(s)	254
BsiHKAI	GWGCWC	2 cut(s)	76, 286
BsiHKCI	CYCGRG	1 cut(s)	140
BslFI	GGGAC	1 cut(s)	157
BsmFI	GGGAC	1 cut(s)	157
BsoBI	CYCGRG	1 cut(s)	140
Bsp1286I	GDGCHC	2 cut(s)	76, 286
BspACI	CCGC	2 cut(s)	60, 136
BspLI	GGNNCC	1 cut(s)	95
BspTI	CTTAAG	1 cut(s)	308
BsrDI	GCAATG	2 cut(s)	198, 261
Bst4CI	ACNGT	1 cut(s)	128
Bst6I	CTCTTC	1 cut(s)	214
BstAFI	CTTAAG	1 cut(s)	308
BstC8I	GCNNGC	2 cut(s)	282, 368
BstDEI	CTNAG	1 cut(s)	9
BstMWI	GCNNNNNNNGC	2 cut(s)	239, 251
BstNSI	RCATGY	4 cut(s)	136, 163, 307, 370
BstV1I	GCAGC	1 cut(s)	254
Cac8I	GCNNGC	2 cut(s)	282, 368
Cfr13I	GGNCC	1 cut(s)	93
Csp6I	GTAC	2 cut(s)	350, 357
CviAII	CATG	6 cut(s)	98, 133, 160, 211, 304, 367
CviJI	RGCY	7 cut(s)	74, 139, 149, 245, 284, 292, 373
CviKI_1	RGCY	7 cut(s)	74, 139, 149, 245, 284, 292, 373
CviQI	GTAC	2 cut(s)	350, 357
DdeI	CTNAG	1 cut(s)	9
Eam1104I	CTCTTC	1 cut(s)	214
EarI	CTCTTC	1 cut(s)	214
Ecl136II	GAGCTC	2 cut(s)	74, 284
Eco24I	GRGCYC	2 cut(s)	76, 286
Eco32I	GATATC	1 cut(s)	65
Eco47I	GGWCC	1 cut(s)	93
Eco53kI	GAGCTC	2 cut(s)	74, 284
Eco88I	CYCGRG	1 cut(s)	140
EcoICRI	GAGCTC	2 cut(s)	74, 284
EcoRV	GATATC	1 cut(s)	65
EcoT38I	GRGCYC	2 cut(s)	76, 286
FaeI	CATG	6 cut(s)	101, 136, 163, 214, 307, 370
FaiI	YATR	9 cut(s)	99, 105, 134, 161, 212, 263, 305, 368, 376
FaqI	GGGAC	1 cut(s)	157
FatI	CATG	6 cut(s)	97, 132, 159, 210, 303, 366
Fnu4HI	GCNGC	3 cut(s)	137, 243, 371
FriOI	GRGCYC	2 cut(s)	76, 286
Fsp4HI	GCNGC	3 cut(s)	137, 243, 371
FspBI	CTAG	2 cut(s)	68, 287
GluI	GCNGC	3 cut(s)	137, 243, 371
Hin1II	CATG	6 cut(s)	101, 136, 163, 214, 307, 370
HphI	GGTGA	2 cut(s)	43, 331
Hpy166II	GTNNAC	1 cut(s)	93
Hpy188III	TCNNGA	2 cut(s)	142, 287
Hpy8I	GTNNAC	1 cut(s)	93
HpyAV	CCTTC	1 cut(s)	190
HpyCH4III	ACNGT	1 cut(s)	128
HpyCH4V	TGCA	5 cut(s)	4, 86, 191, 265, 370
HpyF10VI	GCNNNNNNNGC	2 cut(s)	239, 251
HpyF3I	CTNAG	1 cut(s)	9
Hsp92II	CATG	6 cut(s)	101, 136, 163, 214, 307, 370
LmnI	GCTCC	3 cut(s)	71, 251, 277
LpnPI	CCDG	1 cut(s)	339
Lsp1109I	GCAGC	1 cut(s)	254
MaeI	CTAG	2 cut(s)	68, 287
MaeIII	GTNAC	2 cut(s)	31, 128
MboII	GAAGA	1 cut(s)	231
MhlI	GDGCHC	2 cut(s)	76, 286
MluCI	AATT	1 cut(s)	120
MnlI	CCTC	4 cut(s)	4, 37, 192, 337
MroXI	GAANNNNTTC	1 cut(s)	200
MseI	TTAA	2 cut(s)	123, 309
MspCI	CTTAAG	1 cut(s)	308
MwoI	GCNNNNNNNGC	2 cut(s)	239, 251
NlaIII	CATG	6 cut(s)	101, 136, 163, 214, 307, 370
NlaIV	GGNNCC	1 cut(s)	95
NmuCI	GTSAC	2 cut(s)	31, 128
NspI	RCATGY	4 cut(s)	136, 163, 307, 370
PaeI	GCATGC	1 cut(s)	370
PciI	ACATGT	1 cut(s)	159
PdmI	GAANNNNTTC	1 cut(s)	200
PkrI	GCNGC	3 cut(s)	138, 244, 372
PscI	ACATGT	1 cut(s)	159
Psp124BI	GAGCTC	2 cut(s)	76, 286
PspN4I	GGNNCC	1 cut(s)	95
PspPI	GGNCC	1 cut(s)	93
RsaI	GTAC	2 cut(s)	351, 358
RsaNI	GTAC	2 cut(s)	350, 357
SacI	GAGCTC	2 cut(s)	76, 286
SaqAI	TTAA	2 cut(s)	123, 309
SatI	GCNGC	3 cut(s)	137, 243, 371
Sau96I	GGNCC	1 cut(s)	93
ScaI	AGTACT	1 cut(s)	358
SduI	GDGCHC	2 cut(s)	76, 286
SetI	ASST	7 cut(s)	42, 48, 76, 151, 201, 286, 294
SinI	GGWCC	1 cut(s)	93
SmlI	CTYRAG	1 cut(s)	308
SmoI	CTYRAG	1 cut(s)	308
SphI	GCATGC	1 cut(s)	370
Sse9I	AATT	1 cut(s)	120
SsiI	CCGC	2 cut(s)	60, 136
SspMI	CTAG	2 cut(s)	68, 287
SstI	GAGCTC	2 cut(s)	76, 286
TaaI	ACNGT	1 cut(s)	128
TaqI	TCGA	2 cut(s)	108, 204
TasI	AATT	1 cut(s)	120
TatI	WGTACW	1 cut(s)	356
TauI	GCSGC	1 cut(s)	139
Tru1I	TTAA	2 cut(s)	123, 309
Tru9I	TTAA	2 cut(s)	123, 309
TseFI	GTSAC	2 cut(s)	31, 128
TseI	GCWGC	2 cut(s)	242, 370
Tsp45I	GTSAC	2 cut(s)	31, 128
TspDTI	ATGAA	3 cut(s)	132, 209, 345
Vha464I	CTTAAG	1 cut(s)	308
VpaK11BI	GGWCC	1 cut(s)	93
XbaI	TCTAGA	1 cut(s)	286
XceI	RCATGY	4 cut(s)	136, 163, 307, 370
XcmI	CCANNNNNNNNNTGG	1 cut(s)	253
XmnI	GAANNNNTTC	1 cut(s)	200
XspI	CTAG	2 cut(s)	68, 287
ZrmI	AGTACT	1 cut(s)	358

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