Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Reverse (-)

33746424 .. 33747098

Gene Structure 675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG296900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAACATTGTTATTGGTGGGTGGTCGAAATATGGTAGAGTTGGTGAGATGGAGAGGACTTTGGAAGCAATGGTAGCAGATAGGTTTAGTCCTGATAGTGCAACTTTCAGTAACATTCTTGAGGGTCTAGGAAGAGATGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCGTGCCAGACACCATTACATACAATTCAATTATCTCTAACTTCATCTCTGTTGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCGATCCAAATGTTGATACTTATACCAAATTGATTACCGGTTTCCTTAAAGCCCGGAAAGTGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCCTATGTAGCTATGGTCCACCATATGCTGCTATGCTGATTTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCATTGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGCTAAACATTTGGAAGAGATGCAGGAATGTGGTTATGCTTCTGATATCGAAGTTTATGAGTATGTAA

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

224

Amino Acids

25.14

Weight (kDa)

9.04

Isoelectric Point (pI)

27.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	11 - 55	2.9e-07	PPR repeat family
PPR_3	PF13812	32 - 88	1.8e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	40 - 71	9e-06	PPR repeat
PPR_2	PF13041	46 - 89	1.5e-10	PPR repeat family
PPR_long	PF17177	58 - 156	2.4e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	77 - 126	1.1e-11	PPR repeat family
PPR_1	PF12854	110 - 140	2.1e-07	PPR repeat
PPR_2	PF13041	116 - 160	1.4e-09	PPR repeat family
PPR	PF01535	116 - 145	1.7e-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: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	561
AciI	CCGC	1 cut(s)	392
AclWI	GGATC	1 cut(s)	326
AfiI	CCNNNNNNNGG	2 cut(s)	388, 446
AgeI	ACCGGT	1 cut(s)	365
AgsI	TTSAA	3 cut(s)	22, 252, 307
AluBI	AGCT	2 cut(s)	483, 565
AluI	AGCT	2 cut(s)	483, 565
AlwI	GGATC	1 cut(s)	326
ApeKI	GCWGC	1 cut(s)	500
AsiGI	ACCGGT	1 cut(s)	365
AspLEI	GCGC	1 cut(s)	579
AspS9I	GGNCC	1 cut(s)	488
AsuC2I	CCSGG	1 cut(s)	382
AsuHPI	GGTGA	1 cut(s)	89
AvaII	GGWCC	1 cut(s)	488
BbvI	GCAGC	1 cut(s)	487
BccI	CCATC	1 cut(s)	76
BcnI	CCSGG	1 cut(s)	382
BfaI	CTAG	2 cut(s)	161, 585
BisI	GCNGC	1 cut(s)	501
BlsI	GCNGC	1 cut(s)	502
Bme1390I	CCNGG	1 cut(s)	382
Bme18I	GGWCC	1 cut(s)	488
BmgT120I	GGNCC	1 cut(s)	488
BmiI	GGNNCC	1 cut(s)	471
BmrFI	CCNGG	1 cut(s)	382
BmsI	GCATC	3 cut(s)	175, 385, 617
BpmI	CTGGAG	1 cut(s)	422
BpuEI	CTTGAG	1 cut(s)	173
BpuMI	CCSGG	1 cut(s)	382
BsaAI	YACGTR	1 cut(s)	33
BsaWI	WCCGGW	1 cut(s)	365
Bsc4I	CCNNNNNNNGG	2 cut(s)	388, 446
Bse118I	RCCGGY	1 cut(s)	365
Bse1I	ACTGG	1 cut(s)	405
Bse3DI	GCAATG	1 cut(s)	108
BseGI	GGATG	2 cut(s)	400, 542
BseLI	CCNNNNNNNGG	2 cut(s)	388, 446
BseMI	GCAATG	1 cut(s)	108
BseNI	ACTGG	1 cut(s)	405
BseXI	GCAGC	1 cut(s)	487
BshTI	ACCGGT	1 cut(s)	365
BsiSI	CCGG	2 cut(s)	366, 382
BslFI	GGGAC	1 cut(s)	463
BslI	CCNNNNNNNGG	2 cut(s)	388, 446
BsmFI	GGGAC	1 cut(s)	463
Bsp143I	GATC	2 cut(s)	172, 331
BspACI	CCGC	1 cut(s)	392
BspLI	GGNNCC	1 cut(s)	471
BspPI	GGATC	1 cut(s)	326
BsrDI	GCAATG	1 cut(s)	108
BsrFI	RCCGGY	1 cut(s)	365
BsrI	ACTGG	1 cut(s)	405
BssAI	RCCGGY	1 cut(s)	365
BssMI	GATC	2 cut(s)	172, 331
Bst6I	CTCTTC	2 cut(s)	160, 617
BstBAI	YACGTR	1 cut(s)	33
BstC8I	GCNNGC	2 cut(s)	227, 328
BstF5I	GGATG	2 cut(s)	400, 542
BstHHI	GCGC	1 cut(s)	579
BstKTI	GATC	2 cut(s)	175, 334
BstMBI	GATC	2 cut(s)	172, 331
BstMWI	GCNNNNNNNGC	1 cut(s)	107
BstSCI	CCNGG	1 cut(s)	380
BstSNI	TACGTA	1 cut(s)	33
BstV1I	GCAGC	1 cut(s)	487
BtsCI	GGATG	2 cut(s)	400, 542
BtsIMutI	CAGTG	1 cut(s)	398
Cac8I	GCNNGC	2 cut(s)	227, 328
CfoI	GCGC	1 cut(s)	579
Cfr10I	RCCGGY	1 cut(s)	365
Cfr13I	GGNCC	1 cut(s)	488
CspAI	ACCGGT	1 cut(s)	365
CviAII	CATG	1 cut(s)	208
CviJI	RGCY	3 cut(s)	380, 483, 565
CviKI_1	RGCY	3 cut(s)	380, 483, 565
DpnI	GATC	2 cut(s)	174, 333
DpnII	GATC	2 cut(s)	172, 331
Eam1104I	CTCTTC	2 cut(s)	160, 617
EarI	CTCTTC	2 cut(s)	160, 617
EciI	GGCGGA	1 cut(s)	407
Eco105I	TACGTA	1 cut(s)	33
Eco32I	GATATC	1 cut(s)	654
Eco47I	GGWCC	1 cut(s)	488
EcoRV	GATATC	1 cut(s)	654
FaeI	CATG	1 cut(s)	211
FaqI	GGGAC	1 cut(s)	463
FatI	CATG	1 cut(s)	207
FauNDI	CATATG	1 cut(s)	496
Fnu4HI	GCNGC	1 cut(s)	501
FokI	GGATG	2 cut(s)	407, 549
Fsp4HI	GCNGC	1 cut(s)	501
FspBI	CTAG	2 cut(s)	161, 585
GlaI	GCGC	1 cut(s)	578
GluI	GCNGC	1 cut(s)	501
GsuI	CTGGAG	1 cut(s)	422
HapII	CCGG	2 cut(s)	366, 382
HhaI	GCGC	1 cut(s)	579
Hin1II	CATG	1 cut(s)	211
Hin6I	GCGC	1 cut(s)	577
HinP1I	GCGC	1 cut(s)	577
HinfI	GANTC	1 cut(s)	18
HpaII	CCGG	2 cut(s)	366, 382
HphI	GGTGA	1 cut(s)	89
Hpy166II	GTNNAC	2 cut(s)	298, 491
Hpy188I	TCNGA	3 cut(s)	177, 536, 651
Hpy188III	TCNNGA	4 cut(s)	125, 152, 307, 585
Hpy8I	GTNNAC	2 cut(s)	298, 491
HpyAV	CCTTC	1 cut(s)	205
HpyCH4IV	ACGT	1 cut(s)	32
HpyCH4V	TGCA	4 cut(s)	134, 188, 398, 630
HpyF10VI	GCNNNNNNNGC	1 cut(s)	107
HpySE526I	ACGT	1 cut(s)	32
Hsp92II	CATG	1 cut(s)	211
HspAI	GCGC	1 cut(s)	577
Kzo9I	GATC	2 cut(s)	172, 331
LpnPI	CCDG	7 cut(s)	138, 243, 379, 386, 395, 530, 616
Lsp1109I	GCAGC	1 cut(s)	487
LweI	GCATC	3 cut(s)	175, 385, 617
MaeI	CTAG	2 cut(s)	161, 585
MaeII	ACGT	1 cut(s)	32
MaeIII	GTNAC	1 cut(s)	143
MalI	GATC	2 cut(s)	174, 333
MboI	GATC	2 cut(s)	172, 331
MboII	GAAGA	2 cut(s)	177, 634
MluCI	AATT	3 cut(s)	247, 252, 356
MmeI	TCCRAC	1 cut(s)	514
MnlI	CCTC	4 cut(s)	81, 148, 422, 469
MseI	TTAA	2 cut(s)	375, 422
MspI	CCGG	2 cut(s)	366, 382
MspR9I	CCNGG	1 cut(s)	382
MwoI	GCNNNNNNNGC	1 cut(s)	107
NciI	CCSGG	1 cut(s)	382
NdeI	CATATG	1 cut(s)	496
NdeII	GATC	2 cut(s)	172, 331
NlaIII	CATG	1 cut(s)	211
NlaIV	GGNNCC	1 cut(s)	471
PfeI	GAWTC	1 cut(s)	18
PinAI	ACCGGT	1 cut(s)	365
PkrI	GCNGC	1 cut(s)	502
Ppu21I	YACGTR	1 cut(s)	33
PsiI	TTATAA	1 cut(s)	561
PspN4I	GGNNCC	1 cut(s)	471
PspPI	GGNCC	1 cut(s)	488
SaqAI	TTAA	2 cut(s)	375, 422
SatI	GCNGC	1 cut(s)	501
Sau3AI	GATC	2 cut(s)	172, 331
Sau96I	GGNCC	1 cut(s)	488
ScrFI	CCNGG	1 cut(s)	382
SetI	ASST	7 cut(s)	35, 119, 223, 461, 485, 534, 567
SfaNI	GCATC	3 cut(s)	175, 385, 617
SinI	GGWCC	1 cut(s)	488
SmlI	CTYRAG	1 cut(s)	152
SmoI	CTYRAG	1 cut(s)	152
SnaBI	TACGTA	1 cut(s)	33
Sse9I	AATT	3 cut(s)	247, 252, 356
SsiI	CCGC	1 cut(s)	392
SspI	AATATT	1 cut(s)	283
SspMI	CTAG	2 cut(s)	161, 585
StyD4I	CCNGG	1 cut(s)	380
TaiI	ACGT	1 cut(s)	35
TaqI	TCGA	4 cut(s)	59, 317, 427, 656
TasI	AATT	3 cut(s)	247, 252, 356
TfiI	GAWTC	1 cut(s)	18
Tru1I	TTAA	2 cut(s)	375, 422
Tru9I	TTAA	2 cut(s)	375, 422
TscAI	CASTG	1 cut(s)	405
TseI	GCWGC	1 cut(s)	500
TspDTI	ATGAA	4 cut(s)	17, 224, 256, 303
TspRI	CASTG	1 cut(s)	405
VpaK11BI	GGWCC	1 cut(s)	488
XbaI	TCTAGA	1 cut(s)	584
XspI	CTAG	2 cut(s)	161, 585

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