Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0013851

Physical Location & Seq

Genomic Coordinates Reverse (-)

62277907 .. 62278548

Gene Structure 642 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG448100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGAGACAGAAAGGGAAGTACCCGAATGCTGTAACATATGCATTATTGATGGAAGGTTTGTGCATAGTAGGAAAGTATGAGGAAGCAAAGAAGATGATGTTTGATATGGAGTATCGGGGTTGTAAACCACGGCTTGTGAATTATGGTGTTTTGATAAGTGATCTTGGAAGAAGAGGGAAGATTGAGGCGGCAAAATCTTTACTGCAGGAAATGAAGAAAAGGCGGTTTAAGCCAGATGTTGTGATTTATAACATATTGATTAATTTTCTGTGCAAGGAAGGTAGGGCTATAGAGGCTTATAAAGTCTTGATTGAAATGCAAGTTGGAGGTTTCGAGCCTAATGCGGCCACATACAGGATGATGGTTGATGGGTTTTGTCAGATTAAAGATTTTGAGGGAGGGCTGAAGGTTTTGATTGCCATGTTGAAAAGTAAACACTGTCCTCGGTTGAAAACATTTGAGTGCTTGGTTACAGGACTATTGAAGTGTGGGAATGTTGATGGTGCTTGTTTTGTCTTGGAGGAGATGGAAAACAGAAATATGCAATTATGTTGTGAAGCTTGGGAAGCACCAGTTGTTGATGCTTGTGGTAAGGACATTGTTGCAGGTGAGAAAATGACTGAAGTCATATCTGCCGACTAA

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

Dirigent PPR PPR_2 PPR_3 Rad51

Protein Analysis

213

Amino Acids

24.02

Weight (kDa)

8.42

Isoelectric Point (pI)

31.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 56	8.9e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	8 - 54	5.9e-08	PPR repeat family
PPR_2	PF13041	45 - 81	8.1e-07	PPR repeat family
PPR_long	PF17177	57 - 183	3.3e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	76 - 107	1e-10	PPR repeat
PPR_2	PF13041	78 - 127	6.8e-17	PPR repeat family
PPR	PF01535	81 - 110	2.6e-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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Publication-ready

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Orthologous Genes (Group: OG0013851)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07740
fragaria_vesca	FvH4_3g34780
malus_domestica	MD04G1036700.v1.1 MD11G1115700.v1.1 MD12G1096600.v1.1
prunus_persica	Prupe.6G007300_v2.0.a1
pyrus_communis	pycom03g08320
rosa_chinensis	RchiOBHm_Chr5g0062521
rosa_laevigata	RLG00000035563
rosa_multiflora	Rmu_sc0004988.1_g000027
rosa_roxburghii	Rroxscaffold_1G00018090
rosa_rugosa	Rorug05G0350400
rosa_samantha	Rh5AG410400 Rh5BG424400 Rh5CG448100 Rh5DG438700
rosa_wichuraiana	Rw5G038640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	249, 300
AarI	CACCTGC	1 cut(s)	596
Acc36I	ACCTGC	1 cut(s)	596
AciI	CCGC	3 cut(s)	188, 223, 344
AcoI	YGGCCR	1 cut(s)	345
AcuI	CTGAAG	2 cut(s)	425, 642
AfaI	GTAC	1 cut(s)	20
AfiI	CCNNNNNNNGG	1 cut(s)	354
AgsI	TTSAA	4 cut(s)	314, 427, 451, 484
AjuI	GAANNNNNNNTTGG	2 cut(s)	306, 338
AluBI	AGCT	1 cut(s)	560
AluI	AGCT	1 cut(s)	560
AoxI	GGCC	1 cut(s)	345
AseI	ATTAAT	1 cut(s)	261
AsuHPI	GGTGA	1 cut(s)	620
BccI	CCATC	5 cut(s)	43, 355, 362, 494, 520
BceAI	ACGGC	1 cut(s)	146
BcgI	CGANNNNNNTGC	2 cut(s)	323, 357
BfmI	CTRYAG	2 cut(s)	203, 288
BfuAI	ACCTGC	1 cut(s)	596
BisI	GCNGC	2 cut(s)	189, 345
BlsI	GCNGC	2 cut(s)	190, 346
BmsI	GCATC	1 cut(s)	571
BoxI	GACNNNNGTC	1 cut(s)	623
BsaJI	CCNNGG	2 cut(s)	128, 443
Bsc4I	CCNNNNNNNGG	1 cut(s)	354
Bse1I	ACTGG	1 cut(s)	572
BseDI	CCNNGG	2 cut(s)	128, 443
BseGI	GGATG	1 cut(s)	363
BseLI	CCNNNNNNNGG	1 cut(s)	354
BseNI	ACTGG	1 cut(s)	572
BseRI	GAGGAG	1 cut(s)	536
BshFI	GGCC	1 cut(s)	347
BslI	CCNNNNNNNGG	1 cut(s)	354
BsmI	GAATGC	1 cut(s)	31
BsnI	GGCC	1 cut(s)	347
Bsp143I	GATC	1 cut(s)	160
BspACI	CCGC	3 cut(s)	188, 223, 344
BspANI	GGCC	1 cut(s)	347
BspMAI	CTGCAG	1 cut(s)	207
BspMI	ACCTGC	1 cut(s)	596
BsrI	ACTGG	1 cut(s)	572
BssECI	CCNNGG	2 cut(s)	128, 443
BssMI	GATC	1 cut(s)	160
Bst4CI	ACNGT	1 cut(s)	440
Bst6I	CTCTTC	1 cut(s)	166
BstDSI	CCRYGG	1 cut(s)	128
BstF5I	GGATG	1 cut(s)	363
BstKTI	GATC	1 cut(s)	163
BstMBI	GATC	1 cut(s)	160
BstMWI	GCNNNNNNNGC	3 cut(s)	229, 293, 566
BstPAI	GACNNNNGTC	1 cut(s)	623
BstSFI	CTRYAG	2 cut(s)	203, 288
BsuRI	GGCC	1 cut(s)	347
BtgI	CCRYGG	1 cut(s)	128
BtsCI	GGATG	1 cut(s)	363
BtsIMutI	CAGTG	1 cut(s)	436
BveI	ACCTGC	1 cut(s)	596
Csp6I	GTAC	1 cut(s)	19
CviAII	CATG	1 cut(s)	421
CviJI	RGCY	8 cut(s)	133, 232, 287, 296, 337, 347, 403, 560
CviKI_1	RGCY	8 cut(s)	133, 232, 287, 296, 337, 347, 403, 560
CviQI	GTAC	1 cut(s)	19
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
EaeI	YGGCCR	1 cut(s)	345
Eam1104I	CTCTTC	1 cut(s)	166
EarI	CTCTTC	1 cut(s)	166
Eco57I	CTGAAG	2 cut(s)	425, 642
EcoT22I	ATGCAT	1 cut(s)	43
FaeI	CATG	1 cut(s)	424
FatI	CATG	1 cut(s)	420
FauNDI	CATATG	1 cut(s)	37
Fnu4HI	GCNGC	2 cut(s)	189, 345
FokI	GGATG	1 cut(s)	370
Fsp4HI	GCNGC	2 cut(s)	189, 345
GluI	GCNGC	2 cut(s)	189, 345
HaeIII	GGCC	1 cut(s)	347
Hin1II	CATG	1 cut(s)	424
HindIII	AAGCTT	1 cut(s)	558
HphI	GGTGA	1 cut(s)	620
Hpy166II	GTNNAC	2 cut(s)	125, 434
Hpy188I	TCNGA	1 cut(s)	381
Hpy188III	TCNNGA	1 cut(s)	307
Hpy8I	GTNNAC	2 cut(s)	125, 434
HpyAV	CCTTC	3 cut(s)	47, 272, 400
HpyCH4III	ACNGT	1 cut(s)	440
HpyCH4V	TGCA	7 cut(s)	41, 63, 205, 273, 319, 544, 605
HpyF10VI	GCNNNNNNNGC	3 cut(s)	229, 293, 566
Hsp92II	CATG	1 cut(s)	424
Kzo9I	GATC	1 cut(s)	160
LpnPI	CCDG	6 cut(s)	191, 246, 340, 459, 585, 591
LweI	GCATC	1 cut(s)	571
MaeIII	GTNAC	2 cut(s)	31, 469
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MboII	GAAGA	5 cut(s)	103, 180, 183, 190, 226
MluCI	AATT	3 cut(s)	139, 262, 545
MmeI	TCCRAC	1 cut(s)	304
MnlI	CCTC	9 cut(s)	73, 167, 178, 286, 320, 388, 392, 453, 514
Mph1103I	ATGCAT	1 cut(s)	43
MseI	TTAA	3 cut(s)	228, 261, 384
MslI	CAYNNNNRTG	1 cut(s)	460
Mva1269I	GAATGC	1 cut(s)	31
MwoI	GCNNNNNNNGC	3 cut(s)	229, 293, 566
NdeI	CATATG	1 cut(s)	37
NdeII	GATC	1 cut(s)	160
NlaIII	CATG	1 cut(s)	424
NsiI	ATGCAT	1 cut(s)	43
PaqCI	CACCTGC	1 cut(s)	596
PctI	GAATGC	1 cut(s)	31
PkrI	GCNGC	2 cut(s)	190, 346
PshAI	GACNNNNGTC	1 cut(s)	623
PshBI	ATTAAT	1 cut(s)	261
PsiI	TTATAA	2 cut(s)	249, 300
PstI	CTGCAG	1 cut(s)	207
RsaI	GTAC	1 cut(s)	20
RsaNI	GTAC	1 cut(s)	19
RseI	CAYNNNNRTG	1 cut(s)	460
SaqAI	TTAA	3 cut(s)	228, 261, 384
SatI	GCNGC	2 cut(s)	189, 345
Sau3AI	GATC	1 cut(s)	160
SetI	ASST	6 cut(s)	58, 283, 331, 411, 562, 610
SfaNI	GCATC	1 cut(s)	571
SfcI	CTRYAG	2 cut(s)	203, 288
SmiMI	CAYNNNNRTG	1 cut(s)	460
Sse9I	AATT	3 cut(s)	139, 262, 545
SsiI	CCGC	3 cut(s)	188, 223, 344
TaaI	ACNGT	1 cut(s)	440
TaqI	TCGA	1 cut(s)	333
TasI	AATT	3 cut(s)	139, 262, 545
TauI	GCSGC	2 cut(s)	191, 347
Tru1I	TTAA	3 cut(s)	228, 261, 384
Tru9I	TTAA	3 cut(s)	228, 261, 384
TscAI	CASTG	1 cut(s)	443
TspDTI	ATGAA	1 cut(s)	227
TspRI	CASTG	1 cut(s)	443
VspI	ATTAAT	1 cut(s)	261
Zsp2I	ATGCAT	1 cut(s)	43

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