Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0010619

Physical Location & Seq

Genomic Coordinates Reverse (-)

16193827 .. 16224997

Gene Structure 31171 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG087100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 531 bp

ATGCAACGCCTGGCTGGAGATGCGTTGGAGCTTTTCGGGTTGATGCGTAGAAGTGAGGAGAATGAGGGAGAGAATGAGTTTATTTTGACTAGTGTTGTGAGTGCCTTGGCTGTTCCTGAGTTTGTTGATACGGGGAAGCAAATTCACTGTCTTGCGGTGAAAAATGGGCTGATGAGTTTTGTTTCTGTTGGGAATGCGGTTGTTACAATGTATGCGAAATGTGGAAATTTGGACGATGCGCTTAGAACTTTTGAATTGTGTGGTGATAAGAATTCCATCACATGGTCTGCGATGATATGTGGTTTTGCACAGAGTGGGGATTCCCGGAAGGCTTTGAACTTGCTTCGAGACATGCATTTTTCGGGGATAAAGCCAAGCCAGTACACGTTTGTTGGAGTCATCAATGCTTGCGACGTTTCATTGTTCAATGAAGATAGTCTGTCTAAATCAGCAAATATCACCTCGCAACTTTCTTTCCTGTCAAATCTTATTAGGTGGAATCAACTCGTGGTAGCATGGGATGGTTACTAA

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

176

Amino Acids

19.32

Weight (kDa)

4.97

Isoelectric Point (pI)

44.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	90 - 137	3.6e-11	PPR repeat family
PPR	PF01535	93 - 123	1.3e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0010619)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0095201 RchiOBHm_Chr6g0285881
rosa_laevigata	RLG00000000751 RLG00000002295 RLG00000010237 RLG00000025502
rosa_multiflora	Rmu_sc0002129.1_g000014
rosa_roxburghii	Rroxscaffold_1G00028370 Rroxscaffold_5G00349650
rosa_rugosa	Rorug02G0529200
rosa_samantha	Rh1DG087100 Rh2AG140000 Rh2BG143400 Rh2DG097800 Rh3CG363800 Rh3DG316300 Rh4AG097200 Rh4CG106500 Rh6CG292100 Rh6DG284200 Rh7CG172400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	282
AciI	CCGC	2 cut(s)	155, 197
AcsI	RAATTY	3 cut(s)	141, 226, 271
AdeI	CACNNNGTG	1 cut(s)	314
AfaI	GTAC	1 cut(s)	383
AfiI	CCNNNNNNNGG	1 cut(s)	282
AflIII	ACRYGT	1 cut(s)	384
AgsI	TTSAA	3 cut(s)	254, 337, 427
AhlI	ACTAGT	1 cut(s)	89
AjnI	CCWGG	1 cut(s)	9
AluBI	AGCT	1 cut(s)	31
AluI	AGCT	1 cut(s)	31
Alw26I	GTCTC	1 cut(s)	342
ApoI	RAATTY	3 cut(s)	141, 226, 271
ArsI	GACNNNNNNTTYG	2 cut(s)	133, 165
AspLEI	GCGC	1 cut(s)	241
AsuC2I	CCSGG	1 cut(s)	325
AsuHPI	GGTGA	3 cut(s)	169, 275, 451
BauI	CACGAG	1 cut(s)	506
BccI	CCATC	2 cut(s)	284, 515
BciT130I	CCWGG	1 cut(s)	11
BcnI	CCSGG	1 cut(s)	325
BcoDI	GTCTC	1 cut(s)	342
BcuI	ACTAGT	1 cut(s)	89
BfaI	CTAG	1 cut(s)	90
Bme1390I	CCNGG	2 cut(s)	11, 325
BmrFI	CCNGG	2 cut(s)	11, 325
BmsI	GCATC	3 cut(s)	10, 33, 226
BpmI	CTGGAG	1 cut(s)	36
BpuMI	CCSGG	1 cut(s)	325
BsaJI	CCNNGG	1 cut(s)	105
Bsc4I	CCNNNNNNNGG	1 cut(s)	282
Bse1I	ACTGG	1 cut(s)	379
BseBI	CCWGG	1 cut(s)	11
BseDI	CCNNGG	1 cut(s)	105
BseGI	GGATG	1 cut(s)	526
BseLI	CCNNNNNNNGG	1 cut(s)	282
BseMII	CTCAG	1 cut(s)	108
BseNI	ACTGG	1 cut(s)	379
BseRI	GAGGAG	1 cut(s)	71
BsiSI	CCGG	1 cut(s)	325
BslI	CCNNNNNNNGG	1 cut(s)	282
BsmAI	GTCTC	1 cut(s)	342
BsmI	GAATGC	1 cut(s)	199
BspACI	CCGC	2 cut(s)	155, 197
BspCNI	CTCAG	1 cut(s)	109
BsrI	ACTGG	1 cut(s)	379
BssECI	CCNNGG	1 cut(s)	105
BssSI	CACGAG	1 cut(s)	506
BssT1I	CCWWGG	1 cut(s)	105
Bst2BI	CACGAG	1 cut(s)	506
Bst2UI	CCWGG	1 cut(s)	11
Bst4CI	ACNGT	1 cut(s)	149
BstC8I	GCNNGC	1 cut(s)	409
BstDEI	CTNAG	2 cut(s)	117, 242
BstF5I	GGATG	1 cut(s)	526
BstHHI	GCGC	1 cut(s)	241
BstMAI	GTCTC	1 cut(s)	342
BstMWI	GCNNNNNNNGC	1 cut(s)	20
BstNI	CCWGG	1 cut(s)	11
BstNSI	RCATGY	1 cut(s)	355
BstSCI	CCNGG	2 cut(s)	9, 323
BtgZI	GCGATG	1 cut(s)	305
BtsCI	GGATG	1 cut(s)	526
BtsIMutI	CAGTG	1 cut(s)	145
Cac8I	GCNNGC	1 cut(s)	409
CfoI	GCGC	1 cut(s)	241
Csp6I	GTAC	1 cut(s)	382
CviAII	CATG	3 cut(s)	282, 352, 516
CviJI	RGCY	7 cut(s)	14, 31, 110, 169, 332, 373, 378
CviKI_1	RGCY	7 cut(s)	14, 31, 110, 169, 332, 373, 378
CviQI	GTAC	1 cut(s)	382
DdeI	CTNAG	2 cut(s)	117, 242
DraIII	CACNNNGTG	1 cut(s)	314
Eco130I	CCWWGG	1 cut(s)	105
EcoRI	GAATTC	1 cut(s)	271
EcoRII	CCWGG	1 cut(s)	9
EcoT14I	CCWWGG	1 cut(s)	105
EcoT22I	ATGCAT	1 cut(s)	357
ErhI	CCWWGG	1 cut(s)	105
FaeI	CATG	3 cut(s)	285, 355, 519
FaiI	YATR	5 cut(s)	213, 283, 298, 353, 517
FatI	CATG	3 cut(s)	281, 351, 515
FspBI	CTAG	1 cut(s)	90
GlaI	GCGC	1 cut(s)	240
GsuI	CTGGAG	1 cut(s)	36
HapII	CCGG	1 cut(s)	325
HhaI	GCGC	1 cut(s)	241
Hin1II	CATG	3 cut(s)	285, 355, 519
Hin6I	GCGC	1 cut(s)	239
HinP1I	GCGC	1 cut(s)	239
HinfI	GANTC	3 cut(s)	320, 396, 499
HpaII	CCGG	1 cut(s)	325
HphI	GGTGA	3 cut(s)	169, 275, 451
Hpy166II	GTNNAC	1 cut(s)	384
Hpy188III	TCNNGA	2 cut(s)	116, 347
Hpy8I	GTNNAC	1 cut(s)	384
Hpy99I	CGWCG	1 cut(s)	416
HpyAV	CCTTC	1 cut(s)	322
HpyCH4III	ACNGT	1 cut(s)	149
HpyCH4IV	ACGT	2 cut(s)	386, 414
HpyCH4V	TGCA	3 cut(s)	4, 308, 355
HpyF10VI	GCNNNNNNNGC	1 cut(s)	20
HpyF3I	CTNAG	2 cut(s)	117, 242
HpySE526I	ACGT	2 cut(s)	386, 414
Hsp92II	CATG	3 cut(s)	285, 355, 519
HspAI	GCGC	1 cut(s)	239
LmnI	GCTCC	1 cut(s)	28
LpnPI	CCDG	5 cut(s)	23, 129, 338, 392, 491
LweI	GCATC	3 cut(s)	10, 33, 226
MaeI	CTAG	1 cut(s)	90
MaeII	ACGT	2 cut(s)	386, 414
MaeIII	GTNAC	2 cut(s)	202, 524
MboII	GAAGA	1 cut(s)	443
MluCI	AATT	4 cut(s)	141, 226, 254, 271
MlyI	GAGTC	1 cut(s)	405
MmeI	TCCRAC	2 cut(s)	6, 373
MnlI	CCTC	3 cut(s)	49, 58, 472
Mph1103I	ATGCAT	1 cut(s)	357
MspI	CCGG	1 cut(s)	325
MspR9I	CCNGG	2 cut(s)	11, 325
Mva1269I	GAATGC	1 cut(s)	199
MvaI	CCWGG	1 cut(s)	11
MwoI	GCNNNNNNNGC	1 cut(s)	20
NciI	CCSGG	1 cut(s)	325
NlaIII	CATG	3 cut(s)	285, 355, 519
NsiI	ATGCAT	1 cut(s)	357
NspI	RCATGY	1 cut(s)	355
PctI	GAATGC	1 cut(s)	199
PfeI	GAWTC	2 cut(s)	320, 499
PflMI	CCANNNNNTGG	1 cut(s)	282
PfoI	TCCNGGA	1 cut(s)	323
PleI	GAGTC	1 cut(s)	404
PpsI	GAGTC	1 cut(s)	404
Psp6I	CCWGG	1 cut(s)	9
PspGI	CCWGG	1 cut(s)	9
RsaI	GTAC	1 cut(s)	383
RsaNI	GTAC	1 cut(s)	382
SchI	GAGTC	1 cut(s)	405
ScrFI	CCNGG	2 cut(s)	11, 325
SetI	ASST	5 cut(s)	33, 389, 417, 464, 497
SfaNI	GCATC	3 cut(s)	10, 33, 226
SpeI	ACTAGT	1 cut(s)	89
Sse9I	AATT	4 cut(s)	141, 226, 254, 271
SsiI	CCGC	2 cut(s)	155, 197
SspMI	CTAG	1 cut(s)	90
StyD4I	CCNGG	2 cut(s)	9, 323
StyI	CCWWGG	1 cut(s)	105
TaaI	ACNGT	1 cut(s)	149
TaiI	ACGT	2 cut(s)	389, 417
TaqI	TCGA	1 cut(s)	346
TasI	AATT	4 cut(s)	141, 226, 254, 271
TatI	WGTACW	1 cut(s)	381
TfiI	GAWTC	2 cut(s)	320, 499
TscAI	CASTG	1 cut(s)	152
TspDTI	ATGAA	2 cut(s)	408, 444
TspRI	CASTG	1 cut(s)	152
Van91I	CCANNNNNTGG	1 cut(s)	282
XapI	RAATTY	3 cut(s)	141, 226, 271
XceI	RCATGY	1 cut(s)	355
XspI	CTAG	1 cut(s)	90
Zsp2I	ATGCAT	1 cut(s)	357

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