Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Reverse (-)

9234387 .. 9235022

Gene Structure 636 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG056300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGGTCAGTTCAGGTGTAAAGCCGGTTACGACCACCTTTGTTGTCTTTCTCAATGCTTGTAGTCATTCTGGTCTAGTGCAGGAAGGGCGTAGGCTTTTCAAGGCAATGACTGATGATTATGGCATTGTTCCTAATGCGGAGCATTGTGCATGCTTAATTGATCTCTTGGGCCGAGCTGGATGTTTTGATGAGTTAATGAACCAACTCAAAAATATGCCACGTAAAGCTAGCGGTCAAGTTTGGAATGCATTACTTGGTGTTTGTAGAATCCATGGAAATACAGAGCTGGGAAGAAAAGTGGCCGAACAGCTTATTGAGTTAGAGCCTCAATCTTCTGCTCCCTATGTTTTGCTTTCGAGCATATATGCTGAAGAAGGTAGATGGGAGCTGGTAGAGAAGGTGAGACGGCTTATGGATGAGAGACATGTGAGGAAAGAGCGAGCCATTAGTTGGGTAGAAGTTGAAAGTAGAGTGCATGCTTTCACTGTATCAGTCCGGGTAGAAGTTGAAAGTAGAGTGCATGCTTTCACTGTATCAGACAGGCTGCAACCTCTGAAAGAGGAAATATACTCGGTTTTGAAACAGTTAGCTGACCAGATGGAAGAAGATGCTTCAGTAACTAATGCCGAGAACTAG

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

Protein Analysis

211

Amino Acids

23.79

Weight (kDa)

5.74

Isoelectric Point (pI)

47.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E_motif	PF20431	91 - 153	5.7e-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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Publication-ready

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Orthologous Genes (Group: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	450
AciI	CCGC	2 cut(s)	137, 231
AcoI	YGGCCR	1 cut(s)	300
AcuI	CTGAAG	2 cut(s)	390, 597
AfiI	CCNNNNNNNGG	1 cut(s)	450
AflIII	ACRYGT	1 cut(s)	424
AgsI	TTSAA	4 cut(s)	100, 464, 509, 580
AluBI	AGCT	6 cut(s)	176, 227, 286, 310, 388, 590
AluI	AGCT	6 cut(s)	176, 227, 286, 310, 388, 590
Alw26I	GTCTC	2 cut(s)	397, 415
AoxI	GGCC	2 cut(s)	169, 300
ApeKI	GCWGC	1 cut(s)	544
AspS9I	GGNCC	1 cut(s)	169
AsuC2I	CCSGG	1 cut(s)	497
AsuHPI	GGTGA	1 cut(s)	412
AsuNHI	GCTAGC	1 cut(s)	227
BbvI	GCAGC	1 cut(s)	531
BccI	CCATC	2 cut(s)	375, 592
BceAI	ACGGC	1 cut(s)	422
BcnI	CCSGG	1 cut(s)	497
BcoDI	GTCTC	2 cut(s)	397, 415
BfaI	CTAG	3 cut(s)	74, 228, 634
BisI	GCNGC	1 cut(s)	545
BlsI	GCNGC	1 cut(s)	546
Bme1390I	CCNGG	1 cut(s)	497
BmgT120I	GGNCC	1 cut(s)	169
BmrFI	CCNGG	1 cut(s)	497
BmsI	GCATC	1 cut(s)	598
BmtI	GCTAGC	1 cut(s)	231
BpuMI	CCSGG	1 cut(s)	497
BsaAI	YACGTR	1 cut(s)	221
BsaJI	CCNNGG	1 cut(s)	271
Bsc4I	CCNNNNNNNGG	1 cut(s)	450
Bse118I	RCCGGY	1 cut(s)	22
Bse3DI	GCAATG	1 cut(s)	111
BseDI	CCNNGG	1 cut(s)	271
BseGI	GGATG	2 cut(s)	185, 421
BseLI	CCNNNNNNNGG	1 cut(s)	450
BseMI	GCAATG	1 cut(s)	111
BseXI	GCAGC	1 cut(s)	531
BseYI	CCCAGC	1 cut(s)	286
BsgI	GTGCAG	1 cut(s)	98
BshFI	GGCC	2 cut(s)	171, 302
BsiSI	CCGG	2 cut(s)	23, 496
BslI	CCNNNNNNNGG	1 cut(s)	450
BsmAI	GTCTC	2 cut(s)	397, 415
BsmBI	CGTCTC	1 cut(s)	397
BsmI	GAATGC	1 cut(s)	250
BsnI	GGCC	2 cut(s)	171, 302
Bsp143I	GATC	1 cut(s)	160
Bsp19I	CCATGG	1 cut(s)	271
BspACI	CCGC	2 cut(s)	137, 231
BspANI	GGCC	2 cut(s)	171, 302
BspOI	GCTAGC	1 cut(s)	231
BsrDI	GCAATG	1 cut(s)	111
BsrFI	RCCGGY	1 cut(s)	22
BssAI	RCCGGY	1 cut(s)	22
BssECI	CCNNGG	1 cut(s)	271
BssMI	GATC	1 cut(s)	160
BssT1I	CCWWGG	1 cut(s)	271
Bst4CI	ACNGT	3 cut(s)	487, 532, 585
BstBAI	YACGTR	1 cut(s)	221
BstC8I	GCNNGC	5 cut(s)	151, 229, 441, 477, 522
BstDSI	CCRYGG	1 cut(s)	271
BstF5I	GGATG	2 cut(s)	185, 421
BstKTI	GATC	1 cut(s)	163
BstMAI	GTCTC	2 cut(s)	397, 415
BstMBI	GATC	1 cut(s)	160
BstMWI	GCNNNNNNNGC	1 cut(s)	85
BstNSI	RCATGY	4 cut(s)	153, 428, 479, 524
BstSCI	CCNGG	1 cut(s)	495
BstV1I	GCAGC	1 cut(s)	531
BsuRI	GGCC	2 cut(s)	171, 302
BtgI	CCRYGG	1 cut(s)	271
BtsCI	GGATG	2 cut(s)	185, 421
BtsIMutI	CAGTG	2 cut(s)	483, 528
Cac8I	GCNNGC	5 cut(s)	151, 229, 441, 477, 522
Cfr10I	RCCGGY	1 cut(s)	22
Cfr13I	GGNCC	1 cut(s)	169
CspCI	CAANNNNNGTGG	2 cut(s)	22, 57
CviAII	CATG	5 cut(s)	150, 272, 425, 476, 521
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
EaeI	YGGCCR	1 cut(s)	300
Eco130I	CCWWGG	1 cut(s)	271
Eco57I	CTGAAG	2 cut(s)	390, 597
EcoT14I	CCWWGG	1 cut(s)	271
EcoT22I	ATGCAT	1 cut(s)	250
ErhI	CCWWGG	1 cut(s)	271
Esp3I	CGTCTC	1 cut(s)	397
FaeI	CATG	5 cut(s)	153, 275, 428, 479, 524
FatI	CATG	5 cut(s)	149, 271, 424, 475, 520
Fnu4HI	GCNGC	1 cut(s)	545
FokI	GGATG	2 cut(s)	192, 428
Fsp4HI	GCNGC	1 cut(s)	545
FspBI	CTAG	3 cut(s)	74, 228, 634
GluI	GCNGC	1 cut(s)	545
GsaI	CCCAGC	1 cut(s)	290
HaeIII	GGCC	2 cut(s)	171, 302
HapII	CCGG	2 cut(s)	23, 496
Hin1II	CATG	5 cut(s)	153, 275, 428, 479, 524
HinfI	GANTC	1 cut(s)	267
HpaII	CCGG	2 cut(s)	23, 496
HphI	GGTGA	1 cut(s)	412
Hpy188I	TCNGA	2 cut(s)	538, 555
HpyAV	CCTTC	3 cut(s)	77, 368, 391
HpyCH4III	ACNGT	3 cut(s)	487, 532, 585
HpyCH4IV	ACGT	1 cut(s)	220
HpyCH4V	TGCA	6 cut(s)	79, 149, 248, 475, 520, 547
HpyF10VI	GCNNNNNNNGC	1 cut(s)	85
HpySE526I	ACGT	1 cut(s)	220
Hsp92II	CATG	5 cut(s)	153, 275, 428, 479, 524
Kzo9I	GATC	1 cut(s)	160
LmnI	GCTCC	3 cut(s)	139, 343, 385
LpnPI	CCDG	9 cut(s)	36, 54, 65, 162, 272, 374, 509, 526, 608
Lsp1109I	GCAGC	1 cut(s)	531
LweI	GCATC	1 cut(s)	598
MaeI	CTAG	3 cut(s)	74, 228, 634
MaeII	ACGT	1 cut(s)	220
MaeIII	GTNAC	2 cut(s)	25, 616
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MboII	GAAGA	5 cut(s)	303, 324, 383, 614, 617
MluCI	AATT	1 cut(s)	156
MnlI	CCTC	4 cut(s)	336, 423, 553, 561
Mph1103I	ATGCAT	1 cut(s)	250
MseI	TTAA	2 cut(s)	155, 194
MspI	CCGG	2 cut(s)	23, 496
MspR9I	CCNGG	1 cut(s)	497
Mva1269I	GAATGC	1 cut(s)	250
MwoI	GCNNNNNNNGC	1 cut(s)	85
NciI	CCSGG	1 cut(s)	497
NcoI	CCATGG	1 cut(s)	271
NdeII	GATC	1 cut(s)	160
NheI	GCTAGC	1 cut(s)	227
NlaIII	CATG	5 cut(s)	153, 275, 428, 479, 524
NmeAIII	GCCGAG	1 cut(s)	197
NsiI	ATGCAT	1 cut(s)	250
NspI	RCATGY	4 cut(s)	153, 428, 479, 524
PaeI	GCATGC	3 cut(s)	153, 479, 524
PciI	ACATGT	1 cut(s)	424
PctI	GAATGC	1 cut(s)	250
PfeI	GAWTC	1 cut(s)	267
PflMI	CCANNNNNTGG	1 cut(s)	450
PkrI	GCNGC	1 cut(s)	546
Ppu21I	YACGTR	1 cut(s)	221
PscI	ACATGT	1 cut(s)	424
PspFI	CCCAGC	1 cut(s)	286
PspPI	GGNCC	1 cut(s)	169
SaqAI	TTAA	2 cut(s)	155, 194
SatI	GCNGC	1 cut(s)	545
Sau3AI	GATC	1 cut(s)	160
Sau96I	GGNCC	1 cut(s)	169
ScrFI	CCNGG	1 cut(s)	497
SfaNI	GCATC	1 cut(s)	598
SphI	GCATGC	3 cut(s)	153, 479, 524
Sse9I	AATT	1 cut(s)	156
SsiI	CCGC	2 cut(s)	137, 231
SspMI	CTAG	3 cut(s)	74, 228, 634
StyD4I	CCNGG	1 cut(s)	495
StyI	CCWWGG	1 cut(s)	271
TaaI	ACNGT	3 cut(s)	487, 532, 585
TaiI	ACGT	1 cut(s)	223
TaqI	TCGA	1 cut(s)	356
TasI	AATT	1 cut(s)	156
TfiI	GAWTC	1 cut(s)	267
Tru1I	TTAA	2 cut(s)	155, 194
Tru9I	TTAA	2 cut(s)	155, 194
TscAI	CASTG	2 cut(s)	490, 535
TseI	GCWGC	1 cut(s)	544
TspDTI	ATGAA	1 cut(s)	212
TspRI	CASTG	2 cut(s)	490, 535
Van91I	CCANNNNNTGG	1 cut(s)	450
XceI	RCATGY	4 cut(s)	153, 428, 479, 524
XspI	CTAG	3 cut(s)	74, 228, 634
Zsp2I	ATGCAT	1 cut(s)	250

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