Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0008675

Physical Location & Seq

Genomic Coordinates Forward (+)

5110848 .. 5111315

Gene Structure 468 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG038400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGGTAAGTGGATATGCAAAGGCAGCAAGTGTAAAAGTTGCAAGATCGATGTTTACAAAGATGATGGAGAGGAATGTAGTCTCTTGGAATGCACTTATTGCAGGTTACACACAGAATGGAGAGAATGAAGAGGCCCTTGGACTCTTTCTCCTCCTGAAAAGAGAGTCTGTTTGGCCCACCCACTACACATTTGCAAATCTACTCAATGCTTGTGCAAGTCTTGTTGATCTGCAGCTTGGCAGGCAAGCTCATTCACACATATTGAAGCATGGTTTTCAATTCCAGGTTGGTGAAGAGCTTGATATATTTGTTGGAAATTCTCTAATAGATATGTACATGAAATGTGGGTCTATTGAAGATGGCTGTCAGGTGTTCAGAAATATGTTGGAAAGGGATCATGTCTCATGGAATGCTATGATTGTGGGACATGCGCAAAATGGCCATGGGACTGAAGCTCTTAATATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009451 GO:0009743 GO:0009756 GO:0009987 GO:0010033 GO:0010182 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0023052 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0065007 GO:0070887 GO:0071310 GO:0071322 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR

Protein Analysis

155

Amino Acids

17.31

Weight (kDa)

6.14

Isoelectric Point (pI)

37.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	15 - 71	1.4e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	24 - 72	1.5e-11	PPR repeat family
PPR	PF01535	27 - 56	8.7e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0008675)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G13600
fragaria_vesca	FvH4_7g02360 FvH4_7g02360
malus_domestica	MD02G1294800.v1.1 MD07G1031100.v1.1 MD07G1032100.v1.1
prunus_persica	Prupe.7G009700_v2.0.a1
pyrus_communis	pycom07g02270
rosa_chinensis	RchiOBHm_Chr1g0319691 RchiOBHm_Chr7g0218591
rosa_laevigata	RLG00000002327 RLG00000030463
rosa_multiflora	Rmu_sc0001301.1_g000024
rosa_roxburghii	Rroxscaffold_3G00240770
rosa_rugosa	Rorug01G0029400 Rorug07G0178600
rosa_samantha	Rh1BG038400 Rh7AG319700 Rh7BG311700 Rh7CG336600 Rh7DG318700
rosa_wichuraiana	Rw0G015750 Rw7G027230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	432
Acc36I	ACCTGC	1 cut(s)	92
AclWI	GGATC	1 cut(s)	402
AcoI	YGGCCR	1 cut(s)	439
AcsI	RAATTY	1 cut(s)	316
AfaI	GTAC	1 cut(s)	335
AgsI	TTSAA	3 cut(s)	265, 278, 356
AjnI	CCWGG	1 cut(s)	282
AjuI	GAANNNNNNNTTGG	2 cut(s)	120, 152
AluBI	AGCT	4 cut(s)	235, 248, 298, 455
AluI	AGCT	4 cut(s)	235, 248, 298, 455
Alw26I	GTCTC	2 cut(s)	85, 406
AlwI	GGATC	1 cut(s)	402
AoxI	GGCC	3 cut(s)	132, 173, 439
ApeKI	GCWGC	2 cut(s)	23, 232
ApoI	RAATTY	1 cut(s)	316
AspLEI	GCGC	1 cut(s)	433
AspS9I	GGNCC	2 cut(s)	133, 174
AsuHPI	GGTGA	1 cut(s)	302
BalI	TGGCCA	1 cut(s)	441
BbvI	GCAGC	2 cut(s)	35, 244
BccI	CCATC	2 cut(s)	58, 353
BciT130I	CCWGG	1 cut(s)	284
BcoDI	GTCTC	2 cut(s)	85, 406
BfmI	CTRYAG	1 cut(s)	230
BfuAI	ACCTGC	1 cut(s)	92
BisI	GCNGC	2 cut(s)	24, 233
BlsI	GCNGC	2 cut(s)	25, 234
Bme1390I	CCNGG	1 cut(s)	284
BmgT120I	GGNCC	2 cut(s)	133, 174
BmrFI	CCNGG	1 cut(s)	284
Bsa29I	ATCGAT	1 cut(s)	47
BsaJI	CCNNGG	2 cut(s)	136, 442
BsaXI	ACNNNNNCTCC	2 cut(s)	132, 162
BseBI	CCWGG	1 cut(s)	284
BseCI	ATCGAT	1 cut(s)	47
BseDI	CCNNGG	2 cut(s)	136, 442
BseRI	GAGGAG	1 cut(s)	140
BseXI	GCAGC	2 cut(s)	35, 244
BshFI	GGCC	3 cut(s)	134, 175, 441
BshVI	ATCGAT	1 cut(s)	47
BslFI	GGGAC	2 cut(s)	438, 460
BsmAI	GTCTC	2 cut(s)	85, 406
BsmFI	GGGAC	2 cut(s)	438, 460
BsmI	GAATGC	2 cut(s)	94, 415
BsnI	GGCC	3 cut(s)	134, 175, 441
Bsp1407I	TGTACA	1 cut(s)	333
Bsp143I	GATC	3 cut(s)	44, 226, 394
Bsp19I	CCATGG	1 cut(s)	442
BspANI	GGCC	3 cut(s)	134, 175, 441
BspDI	ATCGAT	1 cut(s)	47
BspMAI	CTGCAG	1 cut(s)	234
BspMI	ACCTGC	1 cut(s)	92
BspPI	GGATC	1 cut(s)	402
BspQI	GCTCTTC	1 cut(s)	288
BsrGI	TGTACA	1 cut(s)	333
BssECI	CCNNGG	2 cut(s)	136, 442
BssMI	GATC	3 cut(s)	44, 226, 394
BssT1I	CCWWGG	2 cut(s)	136, 442
Bst2UI	CCWGG	1 cut(s)	284
Bst6I	CTCTTC	2 cut(s)	123, 288
BstAPI	GCANNNNNTGC	1 cut(s)	98
BstAUI	TGTACA	1 cut(s)	333
BstC8I	GCNNGC	2 cut(s)	242, 246
BstDSI	CCRYGG	1 cut(s)	442
BstHHI	GCGC	1 cut(s)	433
BstKTI	GATC	3 cut(s)	47, 229, 397
BstMAI	GTCTC	2 cut(s)	85, 406
BstMBI	GATC	3 cut(s)	44, 226, 394
BstMWI	GCNNNNNNNGC	3 cut(s)	23, 98, 241
BstNI	CCWGG	1 cut(s)	284
BstNSI	RCATGY	1 cut(s)	431
BstSCI	CCNGG	1 cut(s)	282
BstSFI	CTRYAG	1 cut(s)	230
BstV1I	GCAGC	2 cut(s)	35, 244
Bsu15I	ATCGAT	1 cut(s)	47
BsuRI	GGCC	3 cut(s)	134, 175, 441
BsuTUI	ATCGAT	1 cut(s)	47
BtgI	CCRYGG	1 cut(s)	442
BveI	ACCTGC	1 cut(s)	92
Cac8I	GCNNGC	2 cut(s)	242, 246
CfoI	GCGC	1 cut(s)	433
Cfr13I	GGNCC	2 cut(s)	133, 174
ClaI	ATCGAT	1 cut(s)	47
Csp6I	GTAC	1 cut(s)	334
CviAII	CATG	6 cut(s)	269, 337, 398, 405, 428, 443
CviJI	RGCY	8 cut(s)	134, 175, 235, 248, 298, 363, 441, 455
CviKI_1	RGCY	8 cut(s)	134, 175, 235, 248, 298, 363, 441, 455
CviQI	GTAC	1 cut(s)	334
DpnI	GATC	3 cut(s)	46, 228, 396
DpnII	GATC	3 cut(s)	44, 226, 394
EaeI	YGGCCR	1 cut(s)	439
Eam1104I	CTCTTC	2 cut(s)	123, 288
EarI	CTCTTC	2 cut(s)	123, 288
Eco130I	CCWWGG	2 cut(s)	136, 442
EcoO109I	RGGNCCY	1 cut(s)	133
EcoRII	CCWGG	1 cut(s)	282
EcoT14I	CCWWGG	2 cut(s)	136, 442
ErhI	CCWWGG	2 cut(s)	136, 442
FaeI	CATG	6 cut(s)	272, 340, 401, 408, 431, 446
FalI	AAGNNNNNCTT	2 cut(s)	120, 152
FaqI	GGGAC	2 cut(s)	438, 460
FatI	CATG	6 cut(s)	268, 336, 397, 404, 427, 442
Fnu4HI	GCNGC	2 cut(s)	24, 233
Fsp4HI	GCNGC	2 cut(s)	24, 233
FspI	TGCGCA	1 cut(s)	432
GlaI	GCGC	1 cut(s)	432
GluI	GCNGC	2 cut(s)	24, 233
HaeIII	GGCC	3 cut(s)	134, 175, 441
HhaI	GCGC	1 cut(s)	433
Hin1II	CATG	6 cut(s)	272, 340, 401, 408, 431, 446
Hin6I	GCGC	1 cut(s)	431
HinP1I	GCGC	1 cut(s)	431
HinfI	GANTC	2 cut(s)	141, 164
HphI	GGTGA	1 cut(s)	302
Hpy166II	GTNNAC	1 cut(s)	54
Hpy188I	TCNGA	1 cut(s)	377
Hpy188III	TCNNGA	1 cut(s)	154
Hpy8I	GTNNAC	1 cut(s)	54
HpyCH4V	TGCA	7 cut(s)	17, 41, 92, 101, 194, 215, 232
HpyF10VI	GCNNNNNNNGC	3 cut(s)	23, 98, 241
Hsp92II	CATG	6 cut(s)	272, 340, 401, 408, 431, 446
HspAI	GCGC	1 cut(s)	431
Kzo9I	GATC	3 cut(s)	44, 226, 394
LguI	GCTCTTC	1 cut(s)	288
LpnPI	CCDG	6 cut(s)	87, 167, 226, 269, 296, 353
Lsp1109I	GCAGC	2 cut(s)	35, 244
MaeIII	GTNAC	1 cut(s)	104
MalI	GATC	3 cut(s)	46, 228, 396
MboI	GATC	3 cut(s)	44, 226, 394
MboII	GAAGA	3 cut(s)	140, 305, 368
MlsI	TGGCCA	1 cut(s)	441
MluCI	AATT	2 cut(s)	278, 316
MluNI	TGGCCA	1 cut(s)	441
MlyI	GAGTC	2 cut(s)	135, 173
MmeI	TCCRAC	2 cut(s)	292, 366
MnlI	CCTC	3 cut(s)	63, 124, 161
Mox20I	TGGCCA	1 cut(s)	441
MscI	TGGCCA	1 cut(s)	441
MseI	TTAA	1 cut(s)	459
Msp20I	TGGCCA	1 cut(s)	441
MspR9I	CCNGG	1 cut(s)	284
Mva1269I	GAATGC	2 cut(s)	94, 415
MvaI	CCWGG	1 cut(s)	284
MwoI	GCNNNNNNNGC	3 cut(s)	23, 98, 241
NcoI	CCATGG	1 cut(s)	442
NdeII	GATC	3 cut(s)	44, 226, 394
NlaIII	CATG	6 cut(s)	272, 340, 401, 408, 431, 446
NsbI	TGCGCA	1 cut(s)	432
NspI	RCATGY	1 cut(s)	431
PciSI	GCTCTTC	1 cut(s)	288
PctI	GAATGC	2 cut(s)	94, 415
PkrI	GCNGC	2 cut(s)	25, 234
PleI	GAGTC	2 cut(s)	135, 172
PpsI	GAGTC	2 cut(s)	135, 172
Psp6I	CCWGG	1 cut(s)	282
PspGI	CCWGG	1 cut(s)	282
PspPI	GGNCC	2 cut(s)	133, 174
PstI	CTGCAG	1 cut(s)	234
RsaI	GTAC	1 cut(s)	335
RsaNI	GTAC	1 cut(s)	334
SapI	GCTCTTC	1 cut(s)	288
SaqAI	TTAA	1 cut(s)	459
SatI	GCNGC	2 cut(s)	24, 233
Sau3AI	GATC	3 cut(s)	44, 226, 394
Sau96I	GGNCC	2 cut(s)	133, 174
SchI	GAGTC	2 cut(s)	135, 173
ScrFI	CCNGG	1 cut(s)	284
SetI	ASST	7 cut(s)	106, 237, 250, 288, 300, 372, 457
SfcI	CTRYAG	1 cut(s)	230
Sse9I	AATT	2 cut(s)	278, 316
SspI	AATATT	1 cut(s)	463
StyD4I	CCNGG	1 cut(s)	282
StyI	CCWWGG	2 cut(s)	136, 442
TaqI	TCGA	1 cut(s)	47
TasI	AATT	2 cut(s)	278, 316
TatI	WGTACW	1 cut(s)	333
Tru1I	TTAA	1 cut(s)	459
Tru9I	TTAA	1 cut(s)	459
TseI	GCWGC	2 cut(s)	23, 232
TspDTI	ATGAA	2 cut(s)	141, 353
XapI	RAATTY	1 cut(s)	316
XceI	RCATGY	1 cut(s)	431

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