Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0001580

Physical Location & Seq

Genomic Coordinates Reverse (-)

10045012 .. 10045698

Gene Structure 687 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG065900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGCCTACGAGAGATGTAGTGTCTTGGAATGCAATGATATCTGGGCTTTCACAAAATGGGCAGGGTAACGAAGCTCTAGAGCTCTTTGAGGAGATGCGATTGGGTAGCACAGAGCCGGATTACGTTACATTTGTGAATGTTCTCTCGGCTTGCAGCCATATGGGGTCTGTGGAGAGAGGATGGATTTATTTCAAGATGATGTCTAATGAATTTGGCATTGCCTCAAGGGTGGAGCATTATGCTTGCATGGTTGATGTCCTGAGCCGAGCTGGGAAGTTAGATGAAGCCAAAGATTTCATAGAGTCAGCAACTATTGATCATGGCATCTGTTTATGGCGTATTTTATTAAGTGCTTGTCGAAACTATCGGAATTATGAATTGGGAGCATATGCTGGAGAGAAGTTAATGGAGTTAGGTTCACTAGAATCACAGTCTTACGTGATATTGTCAAGCATCTATACTTCCCTGGGTAGGCGGGAAGATGTTGAGTGGGTAAGGAGGATGATGAAACTTCGAGGGGTGAGTAAGAAGCCTGGCTGTAGCTGGATTGAGTTGAAGAGTCAGGTTCATGTGTTTGTTGTTGGTGATTTTATGCATCCACAGATCGATAGTATAGGTGTTGAGATCCGAAGGTTAATCAAGCATATGAAGGATGAAGGATACCAACCTTCCTCTATCACTTTTTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

228

Amino Acids

25.93

Weight (kDa)

5.9

Isoelectric Point (pI)

52.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	4 - 52	3.7e-13	PPR repeat family
PPR_1	PF12854	4 - 33	3.2e-07	PPR repeat
PPR	PF01535	7 - 33	1.5e-09	PPR repeat
E_motif	PF20431	122 - 184	1.2e-18	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001580)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680
fragaria_vesca	FvH4_7g03841 FvH4_7g03850
malus_domestica	MD02G1276700.v1.1
prunus_persica	Prupe.2G043400_v2.0.a1
pyrus_communis	pycom02g23700
rosa_chinensis	RchiOBHm_Chr1g0326811 RchiOBHm_Chr1g0326821 RchiOBHm_Chr1g0327271 RchiOBHm_Chr1g0327321
rosa_laevigata	RLG00000030002 RLG00000030005 RLG00000030054
rosa_multiflora	Rmu_sc0001021.1_g000002 Rmu_sc0003600.1_g000043 Rmu_sc0005038.1_g000015 Rmu_sc0010151.1_g000003 Rmu_sc0010151.1_g000004 Rmu_sc0020365.1_g000001
rosa_roxburghii	Rroxscaffold_2G00128000 Rroxscaffold_4G00322770 Rroxscaffold_4G00322870
rosa_rugosa	Rorug01G0064900 Rorug01G0065300 Rorug01G0065400 Rorug01G0065500 Rorug01G0065500
rosa_samantha	Rh1AG082500 Rh1AG083100 Rh1BG065600 Rh1BG065900 Rh1BG066000 Rh1CG080500 Rh1DG087500 Rh2AG148500 Rh2AG148600 Rh2BG154000 Rh2DG154200 Rh3CG329400
rosa_wichuraiana	Rw1G006500 Rw1G006530 Rw2G011590 Rw2G011600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	475
AclWI	GGATC	1 cut(s)	619
AcsI	RAATTY	1 cut(s)	209
AfiI	CCNNNNNNNGG	1 cut(s)	471
AgsI	TTSAA	2 cut(s)	193, 556
AjnI	CCWGG	2 cut(s)	465, 532
AjuI	GAANNNNNNNTTGG	2 cut(s)	362, 394
AluBI	AGCT	4 cut(s)	74, 82, 269, 543
AluI	AGCT	4 cut(s)	74, 82, 269, 543
Alw21I	GWGCWC	1 cut(s)	84
AlwI	GGATC	1 cut(s)	619
ApeKI	GCWGC	1 cut(s)	153
ApoI	RAATTY	1 cut(s)	209
AsuHPI	GGTGA	2 cut(s)	532, 596
BanII	GRGCYC	1 cut(s)	84
Bbv12I	GWGCWC	1 cut(s)	84
BbvI	GCAGC	1 cut(s)	165
BccI	CCATC	1 cut(s)	174
BciT130I	CCWGG	2 cut(s)	467, 534
BciVI	GTATCC	1 cut(s)	653
BclI	TGATCA	1 cut(s)	316
BfaI	CTAG	2 cut(s)	77, 422
BfmI	CTRYAG	1 cut(s)	538
BfuI	GTATCC	1 cut(s)	653
BisI	GCNGC	1 cut(s)	154
BlsI	GCNGC	1 cut(s)	155
Bme1390I	CCNGG	2 cut(s)	467, 534
BmrFI	CCNGG	2 cut(s)	467, 534
BmsI	GCATC	4 cut(s)	84, 333, 462, 604
BpmI	CTGGAG	1 cut(s)	414
Bpu10I	CCTNAGC	1 cut(s)	260
BpuEI	CTTGAG	1 cut(s)	208
Bsa29I	ATCGAT	1 cut(s)	606
BsaAI	YACGTR	1 cut(s)	439
BsaJI	CCNNGG	2 cut(s)	465, 466
Bsc4I	CCNNNNNNNGG	1 cut(s)	471
Bse3DI	GCAATG	2 cut(s)	39, 216
BseBI	CCWGG	2 cut(s)	467, 534
BseCI	ATCGAT	1 cut(s)	606
BseDI	CCNNGG	2 cut(s)	465, 466
BseGI	GGATG	4 cut(s)	185, 507, 595, 658
BseLI	CCNNNNNNNGG	1 cut(s)	471
BseMI	GCAATG	2 cut(s)	39, 216
BseMII	CTCAG	1 cut(s)	251
BseRI	GAGGAG	1 cut(s)	104
BseXI	GCAGC	1 cut(s)	165
BseYI	CCCAGC	1 cut(s)	269
BshVI	ATCGAT	1 cut(s)	606
BsiHKAI	GWGCWC	1 cut(s)	84
BsiSI	CCGG	1 cut(s)	116
BslI	CCNNNNNNNGG	1 cut(s)	471
BsmI	GAATGC	1 cut(s)	34
Bsp1286I	GDGCHC	1 cut(s)	84
Bsp143I	GATC	3 cut(s)	316, 603, 624
BspACI	CCGC	1 cut(s)	475
BspCNI	CTCAG	1 cut(s)	252
BspDI	ATCGAT	1 cut(s)	606
BspPI	GGATC	1 cut(s)	619
BsrDI	GCAATG	2 cut(s)	39, 216
BssECI	CCNNGG	2 cut(s)	465, 466
BssMI	GATC	3 cut(s)	316, 603, 624
Bst2UI	CCWGG	2 cut(s)	467, 534
Bst4CI	ACNGT	1 cut(s)	432
Bst6I	CTCTTC	1 cut(s)	551
BstBAI	YACGTR	1 cut(s)	439
BstC8I	GCNNGC	2 cut(s)	151, 244
BstDEI	CTNAG	1 cut(s)	260
BstF5I	GGATG	4 cut(s)	185, 507, 595, 658
BstKTI	GATC	3 cut(s)	319, 606, 627
BstMBI	GATC	3 cut(s)	316, 603, 624
BstNI	CCWGG	2 cut(s)	467, 534
BstSCI	CCNGG	2 cut(s)	465, 532
BstSFI	CTRYAG	1 cut(s)	538
BstV1I	GCAGC	1 cut(s)	165
BstX2I	RGATCY	1 cut(s)	624
BstYI	RGATCY	1 cut(s)	624
Bsu15I	ATCGAT	1 cut(s)	606
BsuI	GTATCC	1 cut(s)	653
BsuTUI	ATCGAT	1 cut(s)	606
BtsCI	GGATG	4 cut(s)	185, 507, 595, 658
Cac8I	GCNNGC	2 cut(s)	151, 244
ClaI	ATCGAT	1 cut(s)	606
CviAII	CATG	3 cut(s)	247, 320, 569
DdeI	CTNAG	1 cut(s)	260
DpnI	GATC	3 cut(s)	318, 605, 626
DpnII	GATC	3 cut(s)	316, 603, 624
Eam1104I	CTCTTC	1 cut(s)	551
EarI	CTCTTC	1 cut(s)	551
Ecl136II	GAGCTC	1 cut(s)	82
Eco24I	GRGCYC	1 cut(s)	84
Eco32I	GATATC	1 cut(s)	39
Eco53kI	GAGCTC	1 cut(s)	82
EcoICRI	GAGCTC	1 cut(s)	82
EcoRII	CCWGG	2 cut(s)	465, 532
EcoRV	GATATC	1 cut(s)	39
EcoT22I	ATGCAT	1 cut(s)	597
EcoT38I	GRGCYC	1 cut(s)	84
FaeI	CATG	3 cut(s)	250, 323, 572
FatI	CATG	3 cut(s)	246, 319, 568
FauI	CCCGC	1 cut(s)	468
FauNDI	CATATG	3 cut(s)	159, 388, 645
FbaI	TGATCA	1 cut(s)	316
Fnu4HI	GCNGC	1 cut(s)	154
FokI	GGATG	4 cut(s)	192, 514, 582, 665
FriOI	GRGCYC	1 cut(s)	84
Fsp4HI	GCNGC	1 cut(s)	154
FspBI	CTAG	2 cut(s)	77, 422
GluI	GCNGC	1 cut(s)	154
GsaI	CCCAGC	1 cut(s)	273
GsuI	CTGGAG	1 cut(s)	414
HapII	CCGG	1 cut(s)	116
Hin1II	CATG	3 cut(s)	250, 323, 572
HinfI	GANTC	3 cut(s)	302, 425, 559
HpaII	CCGG	1 cut(s)	116
HphI	GGTGA	2 cut(s)	532, 596
Hpy166II	GTNNAC	1 cut(s)	419
Hpy188I	TCNGA	2 cut(s)	369, 629
Hpy188III	TCNNGA	3 cut(s)	77, 193, 259
Hpy8I	GTNNAC	1 cut(s)	419
HpyAV	CCTTC	4 cut(s)	624, 643, 650, 678
HpyCH4III	ACNGT	1 cut(s)	432
HpyCH4IV	ACGT	2 cut(s)	123, 438
HpyCH4V	TGCA	4 cut(s)	32, 153, 246, 595
HpyF3I	CTNAG	1 cut(s)	260
HpySE526I	ACGT	2 cut(s)	123, 438
Hsp92II	CATG	3 cut(s)	250, 323, 572
Ksp22I	TGATCA	1 cut(s)	316
Kzo9I	GATC	3 cut(s)	316, 603, 624
LmnI	GCTCC	2 cut(s)	232, 383
Lsp1109I	GCAGC	1 cut(s)	165
LweI	GCATC	4 cut(s)	84, 333, 462, 604
MaeI	CTAG	2 cut(s)	77, 422
MaeII	ACGT	2 cut(s)	123, 438
MaeIII	GTNAC	2 cut(s)	65, 124
MalI	GATC	3 cut(s)	318, 605, 626
MboI	GATC	3 cut(s)	316, 603, 624
MboII	GAAGA	2 cut(s)	491, 568
MflI	RGATCY	1 cut(s)	624
MhlI	GDGCHC	1 cut(s)	84
MluCI	AATT	3 cut(s)	209, 370, 377
MlyI	GAGTC	2 cut(s)	311, 568
MnlI	CCTC	6 cut(s)	82, 170, 232, 492, 509, 682
Mph1103I	ATGCAT	1 cut(s)	597
MseI	TTAA	3 cut(s)	347, 404, 635
MspI	CCGG	1 cut(s)	116
MspR9I	CCNGG	2 cut(s)	467, 534
Mva1269I	GAATGC	1 cut(s)	34
MvaI	CCWGG	2 cut(s)	467, 534
NdeI	CATATG	3 cut(s)	159, 388, 645
NdeII	GATC	3 cut(s)	316, 603, 624
NlaIII	CATG	3 cut(s)	250, 323, 572
NmeAIII	GCCGAG	2 cut(s)	125, 290
NsiI	ATGCAT	1 cut(s)	597
PasI	CCCWGGG	1 cut(s)	466
PctI	GAATGC	1 cut(s)	34
PfeI	GAWTC	1 cut(s)	425
PkrI	GCNGC	1 cut(s)	155
PleI	GAGTC	2 cut(s)	310, 567
PpsI	GAGTC	2 cut(s)	310, 567
Ppu21I	YACGTR	1 cut(s)	439
Psp124BI	GAGCTC	1 cut(s)	84
Psp6I	CCWGG	2 cut(s)	465, 532
PspFI	CCCAGC	1 cut(s)	269
PspGI	CCWGG	2 cut(s)	465, 532
PsuI	RGATCY	1 cut(s)	624
SacI	GAGCTC	1 cut(s)	84
SaqAI	TTAA	3 cut(s)	347, 404, 635
SatI	GCNGC	1 cut(s)	154
Sau3AI	GATC	3 cut(s)	316, 603, 624
SchI	GAGTC	2 cut(s)	311, 568
ScrFI	CCNGG	2 cut(s)	467, 534
SduI	GDGCHC	1 cut(s)	84
SfaNI	GCATC	4 cut(s)	84, 333, 462, 604
SfcI	CTRYAG	1 cut(s)	538
SmlI	CTYRAG	1 cut(s)	223
SmoI	CTYRAG	1 cut(s)	223
Sse9I	AATT	3 cut(s)	209, 370, 377
SsiI	CCGC	1 cut(s)	475
SspMI	CTAG	2 cut(s)	77, 422
SstI	GAGCTC	1 cut(s)	84
StyD4I	CCNGG	2 cut(s)	465, 532
TaaI	ACNGT	1 cut(s)	432
TaiI	ACGT	2 cut(s)	126, 441
TaqI	TCGA	3 cut(s)	358, 514, 606
TasI	AATT	3 cut(s)	209, 370, 377
TfiI	GAWTC	1 cut(s)	425
Tru1I	TTAA	3 cut(s)	347, 404, 635
Tru9I	TTAA	3 cut(s)	347, 404, 635
TseI	GCWGC	1 cut(s)	153
TspDTI	ATGAA	8 cut(s)	222, 286, 297, 390, 521, 557, 662, 669
XapI	RAATTY	1 cut(s)	209
XbaI	TCTAGA	1 cut(s)	76
XspI	CTAG	2 cut(s)	77, 422
Zsp2I	ATGCAT	1 cut(s)	597

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