Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0004368

Physical Location & Seq

Genomic Coordinates Forward (+)

51134815 .. 51135189

Gene Structure 375 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG248800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGAGTTTACATTTAGCAGCCTGCTCAGGTGCAAGTAGTACTTGGGGATCTTGTGAACCCGGAAAGCATCATCATGGCACTGTTACTAGACAGTCGTTTAATAACATAGGCAATGCTCGCAAGGCTGTTGATGCAATGTCCATCAAGAATGTTGTTTCTTGGAACACTATAATTGTGGGATATGGACAGCATGGAAAAGGGATTCAAGCGATAAAACTTCTGTGGGAAATGTTTAGAGAACATTTTTATCCTGATGAGTTTATTCTGGCAAGCATTGTTCGCACATGTGGCAATGCACCATCTGCTAATGAACTTATGGAAGTTCATGCTTACATCCAGGGACGTAGCCAGGATCATAAGGAGGGTTGGGGTTAG

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

124

Amino Acids

13.68

Weight (kDa)

7.82

Isoelectric Point (pI)

35.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	49 - 87	1.4e-07	PPR repeat family
PPR	PF01535	52 - 80	4.8e-06	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: 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)
AclWI	GGATC	2 cut(s)	55, 360
AfaI	GTAC	1 cut(s)	40
AflIII	ACRYGT	1 cut(s)	284
AgsI	TTSAA	1 cut(s)	206
AjnI	CCWGG	2 cut(s)	336, 348
AlwI	GGATC	2 cut(s)	55, 360
ApeKI	GCWGC	1 cut(s)	17
AsuC2I	CCSGG	1 cut(s)	60
BbvI	GCAGC	1 cut(s)	29
BccI	CCATC	2 cut(s)	149, 307
BciT130I	CCWGG	2 cut(s)	338, 350
BcnI	CCSGG	1 cut(s)	60
BfaI	CTAG	1 cut(s)	87
BisI	GCNGC	1 cut(s)	18
BlsI	GCNGC	1 cut(s)	19
BmcAI	AGTACT	1 cut(s)	40
Bme1390I	CCNGG	3 cut(s)	60, 338, 350
BmrFI	CCNGG	3 cut(s)	60, 338, 350
BmsI	GCATC	2 cut(s)	76, 121
Bpu10I	CCTNAGC	1 cut(s)	25
BpuMI	CCSGG	1 cut(s)	60
BsaJI	CCNNGG	1 cut(s)	337
Bse3DI	GCAATG	3 cut(s)	118, 141, 298
BseBI	CCWGG	2 cut(s)	338, 350
BseDI	CCNNGG	1 cut(s)	337
BseGI	GGATG	1 cut(s)	333
BseMI	GCAATG	3 cut(s)	118, 141, 298
BseMII	CTCAG	1 cut(s)	39
BseXI	GCAGC	1 cut(s)	29
BsiSI	CCGG	1 cut(s)	60
BslFI	GGGAC	1 cut(s)	354
BsmFI	GGGAC	1 cut(s)	354
Bsp143I	GATC	2 cut(s)	47, 352
BspCNI	CTCAG	1 cut(s)	38
BspPI	GGATC	2 cut(s)	55, 360
BsrDI	GCAATG	3 cut(s)	118, 141, 298
BssECI	CCNNGG	1 cut(s)	337
BssMI	GATC	2 cut(s)	47, 352
Bst2UI	CCWGG	2 cut(s)	338, 350
Bst4CI	ACNGT	2 cut(s)	82, 93
BstAPI	GCANNNNNTGC	1 cut(s)	302
BstC8I	GCNNGC	3 cut(s)	22, 118, 271
BstDEI	CTNAG	1 cut(s)	25
BstF5I	GGATG	1 cut(s)	333
BstKTI	GATC	2 cut(s)	50, 355
BstMBI	GATC	2 cut(s)	47, 352
BstMWI	GCNNNNNNNGC	6 cut(s)	117, 122, 131, 279, 288, 302
BstNI	CCWGG	2 cut(s)	338, 350
BstNSI	RCATGY	1 cut(s)	288
BstSCI	CCNGG	3 cut(s)	58, 336, 348
BstV1I	GCAGC	1 cut(s)	29
BstX2I	RGATCY	1 cut(s)	47
BstYI	RGATCY	1 cut(s)	47
BtsCI	GGATG	1 cut(s)	333
BtsIMutI	CAGTG	1 cut(s)	78
Cac8I	GCNNGC	3 cut(s)	22, 118, 271
Csp6I	GTAC	1 cut(s)	39
CviAII	CATG	4 cut(s)	74, 191, 285, 326
CviJI	RGCY	3 cut(s)	20, 125, 348
CviKI_1	RGCY	3 cut(s)	20, 125, 348
CviQI	GTAC	1 cut(s)	39
DdeI	CTNAG	1 cut(s)	25
DpnI	GATC	2 cut(s)	49, 354
DpnII	GATC	2 cut(s)	47, 352
EcoRII	CCWGG	2 cut(s)	336, 348
FaeI	CATG	4 cut(s)	77, 194, 288, 329
FaiI	YATR	9 cut(s)	75, 107, 170, 183, 192, 286, 317, 327, 357
FalI	AAGNNNNNCTT	2 cut(s)	25, 57
FaqI	GGGAC	1 cut(s)	354
FatI	CATG	4 cut(s)	73, 190, 284, 325
Fnu4HI	GCNGC	1 cut(s)	18
FokI	GGATG	1 cut(s)	320
Fsp4HI	GCNGC	1 cut(s)	18
FspBI	CTAG	1 cut(s)	87
GluI	GCNGC	1 cut(s)	18
HapII	CCGG	1 cut(s)	60
Hin1II	CATG	4 cut(s)	77, 194, 288, 329
HinfI	GANTC	1 cut(s)	202
HpaII	CCGG	1 cut(s)	60
Hpy166II	GTNNAC	2 cut(s)	8, 56
Hpy188III	TCNNGA	2 cut(s)	145, 251
Hpy8I	GTNNAC	2 cut(s)	8, 56
HpyCH4III	ACNGT	2 cut(s)	82, 93
HpyCH4IV	ACGT	1 cut(s)	343
HpyCH4V	TGCA	3 cut(s)	32, 134, 296
HpyF10VI	GCNNNNNNNGC	6 cut(s)	117, 122, 131, 279, 288, 302
HpyF3I	CTNAG	1 cut(s)	25
HpySE526I	ACGT	1 cut(s)	343
Hsp92II	CATG	4 cut(s)	77, 194, 288, 329
Kzo9I	GATC	2 cut(s)	47, 352
LpnPI	CCDG	9 cut(s)	12, 34, 73, 251, 264, 323, 335, 350, 362
Lsp1109I	GCAGC	1 cut(s)	29
LweI	GCATC	2 cut(s)	76, 121
MaeI	CTAG	1 cut(s)	87
MaeII	ACGT	1 cut(s)	343
MaeIII	GTNAC	1 cut(s)	82
MalI	GATC	2 cut(s)	49, 354
MboI	GATC	2 cut(s)	47, 352
MflI	RGATCY	1 cut(s)	47
MluCI	AATT	1 cut(s)	171
MnlI	CCTC	1 cut(s)	355
MseI	TTAA	1 cut(s)	99
MslI	CAYNNNNRTG	1 cut(s)	72
MspI	CCGG	1 cut(s)	60
MspR9I	CCNGG	3 cut(s)	60, 338, 350
MvaI	CCWGG	2 cut(s)	338, 350
MwoI	GCNNNNNNNGC	6 cut(s)	117, 122, 131, 279, 288, 302
NciI	CCSGG	1 cut(s)	60
NdeII	GATC	2 cut(s)	47, 352
NlaIII	CATG	4 cut(s)	77, 194, 288, 329
NspI	RCATGY	1 cut(s)	288
PciI	ACATGT	1 cut(s)	284
PfeI	GAWTC	1 cut(s)	202
PkrI	GCNGC	1 cut(s)	19
PscI	ACATGT	1 cut(s)	284
Psp6I	CCWGG	2 cut(s)	336, 348
PspGI	CCWGG	2 cut(s)	336, 348
PsuI	RGATCY	1 cut(s)	47
RsaI	GTAC	1 cut(s)	40
RsaNI	GTAC	1 cut(s)	39
RseI	CAYNNNNRTG	1 cut(s)	72
SaqAI	TTAA	1 cut(s)	99
SatI	GCNGC	1 cut(s)	18
Sau3AI	GATC	2 cut(s)	47, 352
ScaI	AGTACT	1 cut(s)	40
ScrFI	CCNGG	3 cut(s)	60, 338, 350
SetI	ASST	2 cut(s)	31, 346
SfaNI	GCATC	2 cut(s)	76, 121
SmiMI	CAYNNNNRTG	1 cut(s)	72
Sse9I	AATT	1 cut(s)	171
SspMI	CTAG	1 cut(s)	87
StyD4I	CCNGG	3 cut(s)	58, 336, 348
TaaI	ACNGT	2 cut(s)	82, 93
TaiI	ACGT	1 cut(s)	346
TasI	AATT	1 cut(s)	171
TatI	WGTACW	1 cut(s)	38
TfiI	GAWTC	1 cut(s)	202
Tru1I	TTAA	1 cut(s)	99
Tru9I	TTAA	1 cut(s)	99
TscAI	CASTG	1 cut(s)	85
TseI	GCWGC	1 cut(s)	17
TspDTI	ATGAA	2 cut(s)	314, 324
TspRI	CASTG	1 cut(s)	85
XceI	RCATGY	1 cut(s)	288
XspI	CTAG	1 cut(s)	87
ZrmI	AGTACT	1 cut(s)	40

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