Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

36286067 .. 36286615

Gene Structure 549 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG177800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGGATGGGTATATGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTTATGGATGAGATGGAGGATAATGGGATTGGTTCCAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGAAAAGAAGTCAGGTGAAGCGGTTAATTTGCTTGATGATATGGTGGAGAAGAGGTATATACCGAACTTGGCGCTCTGGGGGAGGCTGTGGGATGACATGGTGGAGAAAGGATATTCTCCGAATTCTTTTACATATAATGTATTGATCAAAGGATTCTGTAACATGGGAAATGCGAAGGAGGGAATTAGGATTTTGGACGAGATGTTCGAAAAAGGCTGTTTGCCAAACAAGTATACTTATGCTATGTTGATTGAGGGGCTCTGTGACTCGGGAGAGGAAGCTGAAATAACTAGAGTAATATCTATGGCAATGTCAAGTGGAGACATTGACAGTGATTCCTGGGATCTTTTCCTTACAAAGGTTATTGGTGATTTGGATTCTGGGGAAAGTGTTCTAAACAGAATACGGCTGGAGAATGCTGATTAG

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_1 PPR_2 PPR_3 PPR_long

Protein Analysis

182

Amino Acids

20.43

Weight (kDa)

4.4

Isoelectric Point (pI)

33.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 41	7.1e-12	PPR repeat family
PPR_1	PF12854	24 - 56	6.8e-07	PPR repeat
PPR_2	PF13041	28 - 63	5.4e-08	PPR repeat family
PPR	PF01535	30 - 59	5.2e-07	PPR repeat
PPR_2	PF13041	69 - 95	1.8e-09	PPR repeat family
PPR_3	PF13812	69 - 126	9.5e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	77 - 109	7.6e-11	PPR repeat
PPR	PF01535	84 - 114	5.4e-08	PPR repeat
PPR_2	PF13041	86 - 130	1.1e-14	PPR repeat family

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: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	356
AciI	CCGC	1 cut(s)	143
AclWI	GGATC	1 cut(s)	474
AcsI	RAATTY	1 cut(s)	244
AfiI	CCNNNNNNNGG	1 cut(s)	481
AgsI	TTSAA	1 cut(s)	110
AjnI	CCWGG	1 cut(s)	461
AloI	GAACNNNNNNTCC	2 cut(s)	311, 343
AluBI	AGCT	3 cut(s)	28, 113, 404
AluI	AGCT	3 cut(s)	28, 113, 404
Alw26I	GTCTC	1 cut(s)	438
AlwI	GGATC	1 cut(s)	474
Ama87I	CYCGRG	1 cut(s)	391
ApoI	RAATTY	1 cut(s)	244
ArsI	GACNNNNNNTTYG	2 cut(s)	311, 343
Asp700I	GAANNNNTTC	1 cut(s)	513
AspLEI	GCGC	1 cut(s)	196
AsuHPI	GGTGA	2 cut(s)	149, 503
AsuII	TTCGAA	1 cut(s)	330
AvaI	CYCGRG	1 cut(s)	391
BanII	GRGCYC	1 cut(s)	384
BccI	CCATC	1 cut(s)	52
BceAI	ACGGC	1 cut(s)	545
BciT130I	CCWGG	1 cut(s)	463
BclI	TGATCA	1 cut(s)	267
BcoDI	GTCTC	1 cut(s)	438
BfaI	CTAG	1 cut(s)	414
BfoI	RGCGCY	1 cut(s)	197
Bme1390I	CCNGG	1 cut(s)	463
BmeT110I	CYCGRG	1 cut(s)	391
BmiI	GGNNCC	1 cut(s)	79
BmrFI	CCNGG	1 cut(s)	463
Bpu14I	TTCGAA	1 cut(s)	330
BsaJI	CCNNGG	1 cut(s)	462
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	1 cut(s)	481
Bse3DI	GCAATG	1 cut(s)	438
BseBI	CCWGG	1 cut(s)	463
BseDI	CCNNGG	1 cut(s)	462
BseGI	GGATG	3 cut(s)	10, 58, 220
BseLI	CCNNNNNNNGG	1 cut(s)	481
BseMI	GCAATG	1 cut(s)	438
BsiHKCI	CYCGRG	1 cut(s)	391
BslI	CCNNNNNNNGG	1 cut(s)	481
BsmAI	GTCTC	1 cut(s)	438
BsmI	GAATGC	1 cut(s)	544
BsoBI	CYCGRG	1 cut(s)	391
Bsp119I	TTCGAA	1 cut(s)	330
Bsp1286I	GDGCHC	1 cut(s)	384
Bsp143I	GATC	2 cut(s)	267, 466
BspACI	CCGC	1 cut(s)	143
BspLI	GGNNCC	1 cut(s)	79
BspPI	GGATC	1 cut(s)	474
BspT104I	TTCGAA	1 cut(s)	330
BsrDI	GCAATG	1 cut(s)	438
BssECI	CCNNGG	1 cut(s)	462
BssMI	GATC	2 cut(s)	267, 466
BssNAI	GTATAC	1 cut(s)	357
Bst1107I	GTATAC	1 cut(s)	357
Bst2UI	CCWGG	1 cut(s)	463
Bst4CI	ACNGT	1 cut(s)	455
Bst6I	CTCTTC	1 cut(s)	167
BstBI	TTCGAA	1 cut(s)	330
BstENI	CCTNNNNNAGG	1 cut(s)	479
BstF5I	GGATG	3 cut(s)	10, 58, 220
BstH2I	RGCGCY	1 cut(s)	197
BstHHI	GCGC	1 cut(s)	196
BstKTI	GATC	2 cut(s)	270, 469
BstMAI	GTCTC	1 cut(s)	438
BstMBI	GATC	2 cut(s)	267, 466
BstMWI	GCNNNNNNNGC	1 cut(s)	25
BstNI	CCWGG	1 cut(s)	463
BstSCI	CCNGG	1 cut(s)	461
BstX2I	RGATCY	1 cut(s)	466
BstYI	RGATCY	1 cut(s)	466
BstZ17I	GTATAC	1 cut(s)	357
BtsCI	GGATG	3 cut(s)	10, 58, 220
BtsIMutI	CAGTG	1 cut(s)	460
CfoI	GCGC	1 cut(s)	196
CviAII	CATG	2 cut(s)	220, 286
CviJI	RGCY	8 cut(s)	28, 38, 113, 208, 339, 382, 404, 532
CviKI_1	RGCY	8 cut(s)	28, 38, 113, 208, 339, 382, 404, 532
DpnI	GATC	2 cut(s)	269, 468
DpnII	GATC	2 cut(s)	267, 466
Eam1104I	CTCTTC	1 cut(s)	167
EarI	CTCTTC	1 cut(s)	167
Eco24I	GRGCYC	1 cut(s)	384
Eco88I	CYCGRG	1 cut(s)	391
EcoNI	CCTNNNNNAGG	1 cut(s)	479
EcoRI	GAATTC	1 cut(s)	244
EcoRII	CCWGG	1 cut(s)	461
EcoT38I	GRGCYC	1 cut(s)	384
FaeI	CATG	2 cut(s)	223, 289
FatI	CATG	2 cut(s)	219, 285
FbaI	TGATCA	1 cut(s)	267
FblI	GTMKAC	1 cut(s)	356
FokI	GGATG	3 cut(s)	17, 65, 227
FriOI	GRGCYC	1 cut(s)	384
FspBI	CTAG	1 cut(s)	414
GlaI	GCGC	1 cut(s)	195
HaeII	RGCGCY	1 cut(s)	197
HhaI	GCGC	1 cut(s)	196
Hin1II	CATG	2 cut(s)	223, 289
Hin6I	GCGC	1 cut(s)	194
HinP1I	GCGC	1 cut(s)	194
HindIII	AAGCTT	1 cut(s)	111
HinfI	GANTC	4 cut(s)	276, 389, 458, 500
HphI	GGTGA	2 cut(s)	149, 503
Hpy166II	GTNNAC	1 cut(s)	357
Hpy188I	TCNGA	1 cut(s)	243
Hpy188III	TCNNGA	1 cut(s)	393
Hpy8I	GTNNAC	1 cut(s)	357
HpyAV	CCTTC	1 cut(s)	292
HpyCH4III	ACNGT	1 cut(s)	455
HpyF10VI	GCNNNNNNNGC	1 cut(s)	25
Hsp92II	CATG	2 cut(s)	223, 289
HspAI	GCGC	1 cut(s)	194
Ksp22I	TGATCA	1 cut(s)	267
Kzo9I	GATC	2 cut(s)	267, 466
LpnPI	CCDG	8 cut(s)	5, 14, 120, 184, 448, 475, 489, 518
MaeI	CTAG	1 cut(s)	414
MaeIII	GTNAC	3 cut(s)	88, 281, 386
MalI	GATC	2 cut(s)	269, 468
MboI	GATC	2 cut(s)	267, 466
MboII	GAAGA	1 cut(s)	184
MflI	RGATCY	1 cut(s)	466
MhlI	GDGCHC	1 cut(s)	384
MluCI	AATT	3 cut(s)	148, 244, 306
MlyI	GAGTC	1 cut(s)	383
MnlI	CCTC	8 cut(s)	28, 55, 79, 168, 198, 295, 370, 391
MroXI	GAANNNNTTC	1 cut(s)	513
MseI	TTAA	2 cut(s)	42, 147
MspR9I	CCNGG	1 cut(s)	463
Mva1269I	GAATGC	1 cut(s)	544
MvaI	CCWGG	1 cut(s)	463
MwoI	GCNNNNNNNGC	1 cut(s)	25
NdeII	GATC	2 cut(s)	267, 466
NlaIII	CATG	2 cut(s)	223, 289
NlaIV	GGNNCC	1 cut(s)	79
NmuCI	GTSAC	1 cut(s)	386
NspV	TTCGAA	1 cut(s)	330
PcsI	WCGNNNNNNNCGW	1 cut(s)	327
PctI	GAATGC	1 cut(s)	544
PdmI	GAANNNNTTC	1 cut(s)	513
PfeI	GAWTC	3 cut(s)	276, 458, 500
PleI	GAGTC	1 cut(s)	383
PpsI	GAGTC	1 cut(s)	383
Psp6I	CCWGG	1 cut(s)	461
PspGI	CCWGG	1 cut(s)	461
PspN4I	GGNNCC	1 cut(s)	79
PsuI	RGATCY	1 cut(s)	466
SaqAI	TTAA	2 cut(s)	42, 147
Sau3AI	GATC	2 cut(s)	267, 466
SchI	GAGTC	1 cut(s)	383
ScrFI	CCNGG	1 cut(s)	463
SduI	GDGCHC	1 cut(s)	384
SetI	ASST	8 cut(s)	30, 48, 90, 115, 139, 179, 406, 486
SfuI	TTCGAA	1 cut(s)	330
Sse9I	AATT	3 cut(s)	148, 244, 306
SsiI	CCGC	1 cut(s)	143
SspMI	CTAG	1 cut(s)	414
StyD4I	CCNGG	1 cut(s)	461
TaaI	ACNGT	1 cut(s)	455
TaqI	TCGA	1 cut(s)	330
TasI	AATT	3 cut(s)	148, 244, 306
TfiI	GAWTC	3 cut(s)	276, 458, 500
Tru1I	TTAA	2 cut(s)	42, 147
Tru9I	TTAA	2 cut(s)	42, 147
TscAI	CASTG	1 cut(s)	460
TseFI	GTSAC	1 cut(s)	386
Tsp45I	GTSAC	1 cut(s)	386
TspDTI	ATGAA	1 cut(s)	29
TspRI	CASTG	1 cut(s)	460
XagI	CCTNNNNNAGG	1 cut(s)	479
XapI	RAATTY	1 cut(s)	244
XmiI	GTMKAC	1 cut(s)	356
XmnI	GAANNNNTTC	1 cut(s)	513
XspI	CTAG	1 cut(s)	414

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