Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0018989

Physical Location & Seq

Genomic Coordinates Reverse (-)

21408402 .. 21408791

Gene Structure 390 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG117600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGGATATTATGAAGAAAAGAGATTTTGTTGGTGGAAATGTCTATAGGATTATCATCAATGGATACCTAAGAAAAAATGATGTTTCTAGAGCACTTGATATGTTTCTTAGTTTGAAAGAATGTGGATATTTGCCTACTACTTCTACCTACAACGAGCTGATGCAGCACCTCTTCAATGTATCTGAAGCATGGAAAGTATTTGATGATATGAAGGACAAAAGAATTAAGCCCACTTTAAAGTCATATTTAGTATTTATCAAGGAGCTTTGTAGAATTTCAAGGACAGATGAGAGTCTCAAGGTCTTGGTTCACATGCGGGCATCTGATATGCGCATTAAAGATGACTTATTGGGTTGTACTTCATATGGAGCAAAAGGGAGAGCTAGATAG

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

PPR PPR_2 PPR_3

Protein Analysis

129

Amino Acids

15.04

Weight (kDa)

9.51

Isoelectric Point (pI)

15.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	15 - 58	1.7e-07	PPR repeat family
PPR_2	PF13041	60 - 91	6.2e-08	PPR repeat family

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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Orthologous Genes (Group: OG0018989)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr3g0450911
rosa_multiflora	Rmu_sc0002621.1_g000011 Rmu_sc0002899.1_g000003
rosa_roxburghii	Rroxscaffold_3G00224570
rosa_samantha	Rh1AG112200 Rh1DG117600 Rh3BG033200 Rh3BG134300 Rh3DG033000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	332
AciI	CCGC	1 cut(s)	316
AcsI	RAATTY	1 cut(s)	273
AcuI	CTGAAG	1 cut(s)	204
AfaI	GTAC	1 cut(s)	358
AgsI	TTSAA	3 cut(s)	115, 175, 279
AluBI	AGCT	3 cut(s)	157, 265, 383
AluI	AGCT	3 cut(s)	157, 265, 383
Alw21I	GWGCWC	1 cut(s)	94
Alw26I	GTCTC	1 cut(s)	299
ApeKI	GCWGC	1 cut(s)	163
ApoI	RAATTY	1 cut(s)	273
AspLEI	GCGC	1 cut(s)	333
Bbv12I	GWGCWC	1 cut(s)	94
BbvI	GCAGC	1 cut(s)	175
BciVI	GTATCC	1 cut(s)	56
BcoDI	GTCTC	1 cut(s)	299
BfaI	CTAG	2 cut(s)	87, 384
BfmI	CTRYAG	1 cut(s)	43
BfuI	GTATCC	1 cut(s)	56
BisI	GCNGC	1 cut(s)	164
BlsI	GCNGC	1 cut(s)	165
BmsI	GCATC	2 cut(s)	150, 329
BpuEI	CTTGAG	1 cut(s)	281
BsaBI	GATNNNNATC	1 cut(s)	53
Bse8I	GATNNNNATC	1 cut(s)	53
BseJI	GATNNNNATC	1 cut(s)	53
BseXI	GCAGC	1 cut(s)	175
BsiHKAI	GWGCWC	1 cut(s)	94
BsmAI	GTCTC	1 cut(s)	299
Bsp1286I	GDGCHC	1 cut(s)	94
BspACI	CCGC	1 cut(s)	316
Bst6I	CTCTTC	1 cut(s)	176
BstC8I	GCNNGC	1 cut(s)	318
BstDEI	CTNAG	2 cut(s)	68, 107
BstHHI	GCGC	1 cut(s)	333
BstMAI	GTCTC	1 cut(s)	299
BstMWI	GCNNNNNNNGC	1 cut(s)	163
BstNSI	RCATGY	1 cut(s)	316
BstSFI	CTRYAG	1 cut(s)	43
BstV1I	GCAGC	1 cut(s)	175
BsuI	GTATCC	1 cut(s)	56
Cac8I	GCNNGC	1 cut(s)	318
CfoI	GCGC	1 cut(s)	333
Csp6I	GTAC	1 cut(s)	357
CviAII	CATG	2 cut(s)	189, 313
CviJI	RGCY	4 cut(s)	157, 229, 265, 383
CviKI_1	RGCY	4 cut(s)	157, 229, 265, 383
CviQI	GTAC	1 cut(s)	357
DdeI	CTNAG	2 cut(s)	68, 107
DraI	TTTAAA	1 cut(s)	237
Eam1104I	CTCTTC	1 cut(s)	176
EarI	CTCTTC	1 cut(s)	176
Eco57I	CTGAAG	1 cut(s)	204
FaeI	CATG	2 cut(s)	192, 316
FatI	CATG	2 cut(s)	188, 312
FauI	CCCGC	1 cut(s)	309
FauNDI	CATATG	1 cut(s)	364
Fnu4HI	GCNGC	1 cut(s)	164
Fsp4HI	GCNGC	1 cut(s)	164
FspAI	RTGCGCAY	1 cut(s)	332
FspBI	CTAG	2 cut(s)	87, 384
FspI	TGCGCA	1 cut(s)	332
GlaI	GCGC	1 cut(s)	332
GluI	GCNGC	1 cut(s)	164
HhaI	GCGC	1 cut(s)	333
Hin1II	CATG	2 cut(s)	192, 316
Hin6I	GCGC	1 cut(s)	331
HinP1I	GCGC	1 cut(s)	331
HinfI	GANTC	1 cut(s)	292
Hpy166II	GTNNAC	1 cut(s)	310
Hpy188I	TCNGA	2 cut(s)	184, 325
Hpy188III	TCNNGA	1 cut(s)	87
Hpy8I	GTNNAC	1 cut(s)	310
HpyAV	CCTTC	1 cut(s)	205
HpyCH4V	TGCA	1 cut(s)	163
HpyF10VI	GCNNNNNNNGC	1 cut(s)	163
HpyF3I	CTNAG	2 cut(s)	68, 107
Hsp92II	CATG	2 cut(s)	192, 316
HspAI	GCGC	1 cut(s)	331
LmnI	GCTCC	2 cut(s)	262, 368
Lsp1109I	GCAGC	1 cut(s)	175
LweI	GCATC	2 cut(s)	150, 329
MaeI	CTAG	2 cut(s)	87, 384
MboII	GAAGA	2 cut(s)	25, 163
MhlI	GDGCHC	1 cut(s)	94
MluCI	AATT	2 cut(s)	222, 273
MlyI	GAGTC	1 cut(s)	301
MnlI	CCTC	1 cut(s)	179
MseI	TTAA	3 cut(s)	225, 236, 336
MwoI	GCNNNNNNNGC	1 cut(s)	163
NdeI	CATATG	1 cut(s)	364
NlaIII	CATG	2 cut(s)	192, 316
NsbI	TGCGCA	1 cut(s)	332
NspI	RCATGY	1 cut(s)	316
PkrI	GCNGC	1 cut(s)	165
PleI	GAGTC	1 cut(s)	300
PpsI	GAGTC	1 cut(s)	300
RsaI	GTAC	1 cut(s)	358
RsaNI	GTAC	1 cut(s)	357
SaqAI	TTAA	3 cut(s)	225, 236, 336
SatI	GCNGC	1 cut(s)	164
SchI	GAGTC	1 cut(s)	301
SduI	GDGCHC	1 cut(s)	94
SetI	ASST	7 cut(s)	69, 149, 159, 171, 267, 303, 385
SfaNI	GCATC	2 cut(s)	150, 329
SfcI	CTRYAG	1 cut(s)	43
SmlI	CTYRAG	1 cut(s)	296
SmoI	CTYRAG	1 cut(s)	296
Sse9I	AATT	2 cut(s)	222, 273
SsiI	CCGC	1 cut(s)	316
SspMI	CTAG	2 cut(s)	87, 384
TasI	AATT	2 cut(s)	222, 273
TatI	WGTACW	1 cut(s)	356
Tru1I	TTAA	3 cut(s)	225, 236, 336
Tru9I	TTAA	3 cut(s)	225, 236, 336
TseI	GCWGC	1 cut(s)	163
TspDTI	ATGAA	3 cut(s)	26, 224, 351
XapI	RAATTY	1 cut(s)	273
XbaI	TCTAGA	1 cut(s)	86
XceI	RCATGY	1 cut(s)	316
XspI	CTAG	2 cut(s)	87, 384

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