Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0018902

Physical Location & Seq

Genomic Coordinates Forward (+)

72476067 .. 72476414

Gene Structure 348 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG516000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 348 bp

ATGATGTCTGCCTATGCTAAAAATCGTAGGGTTGGTGCTGCGCGCCAAATGTTTGATACAATGTCTCACAGAAACTTGGTGTCTTGGAACACTATGATTGCAGGGTACGTGCATAATAATGAGGTCGAGAGAGCTTATGGGCTTTTTGTGAGAATGCCGGAAAGAGATCTCTTCTCACGGACTCTGATGATAACTTTCTGCACGCGGAATGGTGAGCTTGACAGAGCCAGAGGACTGTTCAATTTGCTTCCGGATAAGGGCGATGCGGCCTGTTGGAATGCCATGACTGCAGGGTATGCGAAGAAGTGGAGGTTTGATGAAATGCGGGCGAAAATTTTGGTTTCTTGA

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:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016071 GO:0016556 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:0044444 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

115

Amino Acids

13.33

Weight (kDa)

9.92

Isoelectric Point (pI)

43.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	25 - 56	2.7e-07	PPR repeat family
PPR	PF01535	27 - 56	1e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0018902)

Species	Orthologous Gene IDs
malus_domestica	MD08G1120800.v1.1
rosa_chinensis	RchiOBHm_Chr0c36g0502901 RchiOBHm_Chr2g0153841
rosa_laevigata	RLG00000020733
rosa_multiflora	Rmu_co8043988.1_g000001 Rmu_sc0003887.1_g000016
rosa_roxburghii	Rroxscaffold_6G00422800
rosa_samantha	Rh2BG516000 Rh2DG528300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	43, 205
AccIII	TCCGGA	1 cut(s)	250
AciI	CCGC	3 cut(s)	205, 266, 325
AcsI	RAATTY	1 cut(s)	333
AfaI	GTAC	1 cut(s)	107
AfiI	CCNNNNNNNGG	1 cut(s)	257
AgsI	TTSAA	1 cut(s)	241
AluBI	AGCT	2 cut(s)	134, 217
AluI	AGCT	2 cut(s)	134, 217
Alw26I	GTCTC	1 cut(s)	69
Aor13HI	TCCGGA	1 cut(s)	250
AoxI	GGCC	1 cut(s)	267
ApeKI	GCWGC	1 cut(s)	38
ApoI	RAATTY	1 cut(s)	333
AspLEI	GCGC	2 cut(s)	43, 45
AsuHPI	GGTGA	1 cut(s)	224
BbvI	GCAGC	1 cut(s)	25
BcoDI	GTCTC	1 cut(s)	69
BfmI	CTRYAG	1 cut(s)	288
BglII	AGATCT	1 cut(s)	166
BisI	GCNGC	2 cut(s)	39, 267
BlsI	GCNGC	2 cut(s)	40, 268
BmsI	GCATC	1 cut(s)	253
BsaAI	YACGTR	1 cut(s)	109
BsaWI	WCCGGW	1 cut(s)	250
Bsc4I	CCNNNNNNNGG	1 cut(s)	257
BseAI	TCCGGA	1 cut(s)	250
BseLI	CCNNNNNNNGG	1 cut(s)	257
BsePI	GCGCGC	1 cut(s)	41
BseXI	GCAGC	1 cut(s)	25
BsgI	GTGCAG	1 cut(s)	184
Bsh1236I	CGCG	2 cut(s)	43, 205
BshFI	GGCC	1 cut(s)	269
BsiSI	CCGG	2 cut(s)	158, 251
BslI	CCNNNNNNNGG	1 cut(s)	257
BsmAI	GTCTC	1 cut(s)	69
BsmI	GAATGC	2 cut(s)	159, 283
BsnI	GGCC	1 cut(s)	269
Bsp13I	TCCGGA	1 cut(s)	250
Bsp143I	GATC	1 cut(s)	166
BspACI	CCGC	3 cut(s)	205, 266, 325
BspANI	GGCC	1 cut(s)	269
BspEI	TCCGGA	1 cut(s)	250
BspFNI	CGCG	2 cut(s)	43, 205
BspMAI	CTGCAG	1 cut(s)	292
BssHII	GCGCGC	1 cut(s)	41
BssMI	GATC	1 cut(s)	166
Bst4CI	ACNGT	1 cut(s)	237
Bst6I	CTCTTC	1 cut(s)	176
BstAPI	GCANNNNNTGC	1 cut(s)	296
BstBAI	YACGTR	1 cut(s)	109
BstC8I	GCNNGC	3 cut(s)	43, 203, 327
BstFNI	CGCG	2 cut(s)	43, 205
BstHHI	GCGC	2 cut(s)	43, 45
BstKTI	GATC	1 cut(s)	169
BstMAI	GTCTC	1 cut(s)	69
BstMBI	GATC	1 cut(s)	166
BstMWI	GCNNNNNNNGC	2 cut(s)	287, 296
BstSFI	CTRYAG	1 cut(s)	288
BstUI	CGCG	2 cut(s)	43, 205
BstV1I	GCAGC	1 cut(s)	25
BstX2I	RGATCY	1 cut(s)	166
BstYI	RGATCY	1 cut(s)	166
BsuRI	GGCC	1 cut(s)	269
BtgZI	GCGATG	1 cut(s)	276
Cac8I	GCNNGC	3 cut(s)	43, 203, 327
CfoI	GCGC	2 cut(s)	43, 45
Csp6I	GTAC	1 cut(s)	106
CviAII	CATG	1 cut(s)	283
CviJI	RGCY	5 cut(s)	134, 142, 217, 227, 269
CviKI_1	RGCY	5 cut(s)	134, 142, 217, 227, 269
CviQI	GTAC	1 cut(s)	106
DpnI	GATC	1 cut(s)	168
DpnII	GATC	1 cut(s)	166
Eam1104I	CTCTTC	1 cut(s)	176
EarI	CTCTTC	1 cut(s)	176
FaeI	CATG	1 cut(s)	286
FaiI	YATR	6 cut(s)	15, 95, 114, 138, 284, 297
FatI	CATG	1 cut(s)	282
FauI	CCCGC	1 cut(s)	318
Fnu4HI	GCNGC	2 cut(s)	39, 267
Fsp4HI	GCNGC	2 cut(s)	39, 267
GlaI	GCGC	2 cut(s)	42, 44
GluI	GCNGC	2 cut(s)	39, 267
HaeIII	GGCC	1 cut(s)	269
HapII	CCGG	2 cut(s)	158, 251
HhaI	GCGC	2 cut(s)	43, 45
Hin1II	CATG	1 cut(s)	286
Hin6I	GCGC	2 cut(s)	41, 43
HinP1I	GCGC	2 cut(s)	41, 43
HinfI	GANTC	1 cut(s)	181
HpaII	CCGG	2 cut(s)	158, 251
HphI	GGTGA	1 cut(s)	224
Hpy188I	TCNGA	1 cut(s)	186
Hpy188III	TCNNGA	3 cut(s)	127, 251, 345
HpyCH4III	ACNGT	1 cut(s)	237
HpyCH4IV	ACGT	1 cut(s)	108
HpyCH4V	TGCA	4 cut(s)	101, 112, 201, 290
HpyF10VI	GCNNNNNNNGC	2 cut(s)	287, 296
HpySE526I	ACGT	1 cut(s)	108
Hsp92II	CATG	1 cut(s)	286
HspAI	GCGC	2 cut(s)	41, 43
Kpn2I	TCCGGA	1 cut(s)	250
Kzo9I	GATC	1 cut(s)	166
LpnPI	CCDG	6 cut(s)	87, 171, 241, 264, 276, 283
Lsp1109I	GCAGC	1 cut(s)	25
LweI	GCATC	1 cut(s)	253
MaeII	ACGT	1 cut(s)	108
MalI	GATC	1 cut(s)	168
MboI	GATC	1 cut(s)	166
MboII	GAAGA	2 cut(s)	163, 313
MflI	RGATCY	1 cut(s)	166
MluCI	AATT	2 cut(s)	241, 333
MlyI	GAGTC	1 cut(s)	175
MmeI	TCCRAC	1 cut(s)	254
MnlI	CCTC	3 cut(s)	115, 224, 303
MroI	TCCGGA	1 cut(s)	250
MslI	CAYNNNNRTG	1 cut(s)	117
MspI	CCGG	2 cut(s)	158, 251
Mva1269I	GAATGC	2 cut(s)	159, 283
MvnI	CGCG	2 cut(s)	43, 205
MwoI	GCNNNNNNNGC	2 cut(s)	287, 296
NdeII	GATC	1 cut(s)	166
NlaIII	CATG	1 cut(s)	286
PauI	GCGCGC	1 cut(s)	41
PctI	GAATGC	2 cut(s)	159, 283
PkrI	GCNGC	2 cut(s)	40, 268
PleI	GAGTC	1 cut(s)	175
PpsI	GAGTC	1 cut(s)	175
Ppu21I	YACGTR	1 cut(s)	109
PstI	CTGCAG	1 cut(s)	292
PsuI	RGATCY	1 cut(s)	166
PteI	GCGCGC	1 cut(s)	41
RsaI	GTAC	1 cut(s)	107
RsaNI	GTAC	1 cut(s)	106
RseI	CAYNNNNRTG	1 cut(s)	117
SatI	GCNGC	2 cut(s)	39, 267
Sau3AI	GATC	1 cut(s)	166
SchI	GAGTC	1 cut(s)	175
SetI	ASST	5 cut(s)	111, 126, 136, 219, 314
SfaNI	GCATC	1 cut(s)	253
SfcI	CTRYAG	1 cut(s)	288
SmiMI	CAYNNNNRTG	1 cut(s)	117
Sse9I	AATT	2 cut(s)	241, 333
SsiI	CCGC	3 cut(s)	205, 266, 325
TaaI	ACNGT	1 cut(s)	237
TaiI	ACGT	1 cut(s)	111
TaqI	TCGA	1 cut(s)	126
TasI	AATT	2 cut(s)	241, 333
TauI	GCSGC	1 cut(s)	269
TseI	GCWGC	1 cut(s)	38
TspDTI	ATGAA	1 cut(s)	333
TspGWI	ACGGA	1 cut(s)	193
XapI	RAATTY	1 cut(s)	333

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