Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0004368

Physical Location & Seq

Genomic Coordinates Forward (+)

51135577 .. 51136044

Gene Structure 468 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG248900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGACTATCAAGTTTTTCCAGATTCCGAGCATTATACCTGTCTCATTTCTTGGGCGAGCTGGTCATTTGGATGAGGCTTTCATTGTTTTGACCTCGATGTCAAGCAAACCTGATCCAAGTACATTTGGAGCATTCGCGGCTTGTAAAGTCAATGGACATGTAGGATTAGCAAAATGGGCTGCAGAAAAGCTTTTTACATTAGAACCAAACAAACCTGTGAATTGTACTCTCACGTCTAACATCTATTCTACTGAAGGTCATTGGGCTGATGTTGCAAGGTTACGCCAAATGATGAGGTACAGTTGTGATCAGAAAGCTCCAGGTTGTAGCTGGCTGGAGGTAGGCGGCGACATTCATACGTTTGTATCAGGTGATGAGTCCCACCCACAAGCATCACAGGTGTATGTTATGCAAGGGATGTTGCTCAGGGTGATGAAGGAGATCGAACTGGAGAAGAATTATATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 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:0080156 GO:0090304 GO:0090305 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

155

Amino Acids

17.23

Weight (kDa)

6.5

Isoelectric Point (pI)

40.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E_motif	PF20431	54 - 113	2.1e-17	E motif

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

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Orthologous Genes (Group: OG0004368)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G46050
fragaria_vesca	FvH4_7g14820
malus_domestica	MD01G1066700.v1.1 MD11G1207600.v1.1
pyrus_communis	pycom01g09600 pycom01g22640 pycom17g24510
rosa_chinensis	RchiOBHm_Chr1g0356771 RchiOBHm_Chr1g0356781 RchiOBHm_Chr1g0375691 RchiOBHm_Chr2g0089631 RchiOBHm_Chr4g0418871
rosa_laevigata	RLG00000011901 RLG00000028084
rosa_multiflora	Rmu_co8104928.1_g000001 Rmu_co8368077.1_g000001 Rmu_sc0000517.1_g000030 Rmu_sc0000935.1_g000021 Rmu_sc0002219.1_g000014 Rmu_sc0005718.1_g000009
rosa_roxburghii	Rroxscaffold_4G00299370
rosa_rugosa	Rorug01G0251100
rosa_samantha	Rh1AG265300 Rh1AG265400 Rh1BG232700 Rh1BG232800 Rh1CG248800 Rh1CG248900 Rh1DG260300 Rh4BG214000 Rh6AG008500
rosa_wichuraiana	Rw4G018520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	97
AccII	CGCG	1 cut(s)	137
AciI	CCGC	2 cut(s)	137, 345
AclWI	GGATC	1 cut(s)	107
AcuI	CTGAAG	1 cut(s)	273
AfaI	GTAC	3 cut(s)	121, 226, 299
AflIII	ACRYGT	1 cut(s)	157
AjiI	CACGTC	1 cut(s)	234
AjnI	CCWGG	1 cut(s)	319
AluBI	AGCT	4 cut(s)	59, 190, 317, 330
AluI	AGCT	4 cut(s)	59, 190, 317, 330
Alw26I	GTCTC	1 cut(s)	46
AlwI	GGATC	1 cut(s)	107
ApeKI	GCWGC	1 cut(s)	179
AsuHPI	GGTGA	2 cut(s)	383, 442
BaeI	ACNNNNGTAYC	4 cut(s)	289, 322, 348, 381
BbvI	GCAGC	1 cut(s)	166
BciT130I	CCWGG	1 cut(s)	321
BclI	TGATCA	1 cut(s)	307
BcoDI	GTCTC	1 cut(s)	46
BfmI	CTRYAG	1 cut(s)	180
BisI	GCNGC	3 cut(s)	138, 180, 346
BlsI	GCNGC	3 cut(s)	139, 181, 347
Bme1390I	CCNGG	1 cut(s)	321
BmgBI	CACGTC	1 cut(s)	234
BmrFI	CCNGG	1 cut(s)	321
BmsI	GCATC	1 cut(s)	401
BpmI	CTGGAG	2 cut(s)	303, 356
Bpu10I	CCTNAGC	1 cut(s)	425
Bse1I	ACTGG	1 cut(s)	453
BseBI	CCWGG	1 cut(s)	321
BseGI	GGATG	2 cut(s)	76, 423
BseMII	CTCAG	1 cut(s)	439
BseNI	ACTGG	1 cut(s)	453
BseXI	GCAGC	1 cut(s)	166
Bsh1236I	CGCG	1 cut(s)	137
BslFI	GGGAC	1 cut(s)	364
BsmAI	GTCTC	1 cut(s)	46
BsmFI	GGGAC	1 cut(s)	364
BsmI	GAATGC	1 cut(s)	131
Bsp143I	GATC	3 cut(s)	112, 307, 441
BspACI	CCGC	2 cut(s)	137, 345
BspCNI	CTCAG	1 cut(s)	438
BspFNI	CGCG	1 cut(s)	137
BspMAI	CTGCAG	1 cut(s)	184
BspPI	GGATC	1 cut(s)	107
BsrI	ACTGG	1 cut(s)	453
BssMI	GATC	3 cut(s)	112, 307, 441
Bst2UI	CCWGG	1 cut(s)	321
Bst4CI	ACNGT	1 cut(s)	302
BstC8I	GCNNGC	2 cut(s)	57, 332
BstDEI	CTNAG	1 cut(s)	425
BstF5I	GGATG	2 cut(s)	76, 423
BstFNI	CGCG	1 cut(s)	137
BstKTI	GATC	3 cut(s)	115, 310, 444
BstMAI	GTCTC	1 cut(s)	46
BstMBI	GATC	3 cut(s)	112, 307, 441
BstMWI	GCNNNNNNNGC	3 cut(s)	137, 176, 272
BstNI	CCWGG	1 cut(s)	321
BstNSI	RCATGY	1 cut(s)	161
BstSCI	CCNGG	1 cut(s)	319
BstSFI	CTRYAG	1 cut(s)	180
BstUI	CGCG	1 cut(s)	137
BstV1I	GCAGC	1 cut(s)	166
BtrI	CACGTC	1 cut(s)	234
BtsCI	GGATG	2 cut(s)	76, 423
Cac8I	GCNNGC	2 cut(s)	57, 332
Csp6I	GTAC	3 cut(s)	120, 225, 298
CviAII	CATG	1 cut(s)	158
CviJI	RGCY	9 cut(s)	59, 77, 140, 179, 190, 266, 317, 330, 334
CviKI_1	RGCY	9 cut(s)	59, 77, 140, 179, 190, 266, 317, 330, 334
CviQI	GTAC	3 cut(s)	120, 225, 298
DdeI	CTNAG	1 cut(s)	425
DpnI	GATC	3 cut(s)	114, 309, 443
DpnII	GATC	3 cut(s)	112, 307, 441
DrdI	GACNNNNNNGTC	1 cut(s)	97
DseDI	GACNNNNNNGTC	1 cut(s)	97
Eco57I	CTGAAG	1 cut(s)	273
EcoRII	CCWGG	1 cut(s)	319
FaeI	CATG	1 cut(s)	161
FaiI	YATR	7 cut(s)	35, 159, 357, 405, 410, 462, 464
FaqI	GGGAC	1 cut(s)	364
FatI	CATG	1 cut(s)	157
FbaI	TGATCA	1 cut(s)	307
Fnu4HI	GCNGC	3 cut(s)	138, 180, 346
FokI	GGATG	2 cut(s)	83, 430
Fsp4HI	GCNGC	3 cut(s)	138, 180, 346
GluI	GCNGC	3 cut(s)	138, 180, 346
GsuI	CTGGAG	2 cut(s)	303, 356
Hin1II	CATG	1 cut(s)	161
HindIII	AAGCTT	1 cut(s)	188
HinfI	GANTC	2 cut(s)	22, 377
HphI	GGTGA	2 cut(s)	383, 442
Hpy188I	TCNGA	2 cut(s)	27, 312
Hpy188III	TCNNGA	1 cut(s)	19
HpyAV	CCTTC	2 cut(s)	248, 430
HpyCH4III	ACNGT	1 cut(s)	302
HpyCH4IV	ACGT	2 cut(s)	233, 359
HpyCH4V	TGCA	3 cut(s)	182, 275, 412
HpyF10VI	GCNNNNNNNGC	3 cut(s)	137, 176, 272
HpyF3I	CTNAG	1 cut(s)	425
HpySE526I	ACGT	2 cut(s)	233, 359
Hsp92II	CATG	1 cut(s)	161
Ksp22I	TGATCA	1 cut(s)	307
Kzo9I	GATC	3 cut(s)	112, 307, 441
LmnI	GCTCC	2 cut(s)	128, 322
Lsp1109I	GCAGC	1 cut(s)	166
LweI	GCATC	1 cut(s)	401
MaeII	ACGT	2 cut(s)	233, 359
MaeIII	GTNAC	1 cut(s)	279
MalI	GATC	3 cut(s)	114, 309, 443
MboI	GATC	3 cut(s)	112, 307, 441
MboII	GAAGA	1 cut(s)	466
MluCI	AATT	2 cut(s)	220, 457
MlyI	GAGTC	1 cut(s)	386
MnlI	CCTC	4 cut(s)	67, 103, 288, 331
MslI	CAYNNNNRTG	1 cut(s)	69
MspR9I	CCNGG	1 cut(s)	321
Mva1269I	GAATGC	1 cut(s)	131
MvaI	CCWGG	1 cut(s)	321
MvnI	CGCG	1 cut(s)	137
MwoI	GCNNNNNNNGC	3 cut(s)	137, 176, 272
NdeII	GATC	3 cut(s)	112, 307, 441
NlaIII	CATG	1 cut(s)	161
NspI	RCATGY	1 cut(s)	161
PciI	ACATGT	1 cut(s)	157
PctI	GAATGC	1 cut(s)	131
PfeI	GAWTC	1 cut(s)	22
PkrI	GCNGC	3 cut(s)	139, 181, 347
PleI	GAGTC	1 cut(s)	385
PpsI	GAGTC	1 cut(s)	385
PscI	ACATGT	1 cut(s)	157
Psp6I	CCWGG	1 cut(s)	319
PspGI	CCWGG	1 cut(s)	319
PstI	CTGCAG	1 cut(s)	184
RsaI	GTAC	3 cut(s)	121, 226, 299
RsaNI	GTAC	3 cut(s)	120, 225, 298
RseI	CAYNNNNRTG	1 cut(s)	69
SatI	GCNGC	3 cut(s)	138, 180, 346
Sau3AI	GATC	3 cut(s)	112, 307, 441
SchI	GAGTC	1 cut(s)	386
ScrFI	CCNGG	1 cut(s)	321
SfaNI	GCATC	1 cut(s)	401
SfcI	CTRYAG	1 cut(s)	180
SmiMI	CAYNNNNRTG	1 cut(s)	69
Sse9I	AATT	2 cut(s)	220, 457
SsiI	CCGC	2 cut(s)	137, 345
StyD4I	CCNGG	1 cut(s)	319
TaaI	ACNGT	1 cut(s)	302
TaiI	ACGT	2 cut(s)	236, 362
TaqI	TCGA	2 cut(s)	95, 444
TasI	AATT	2 cut(s)	220, 457
TatI	WGTACW	2 cut(s)	119, 224
TauI	GCSGC	2 cut(s)	140, 348
TfiI	GAWTC	1 cut(s)	22
TseI	GCWGC	1 cut(s)	179
TspDTI	ATGAA	3 cut(s)	70, 344, 449
XceI	RCATGY	1 cut(s)	161
XcmI	CCANNNNNNNNNTGG	1 cut(s)	327

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