Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001522

Physical Location & Seq

Genomic Coordinates Reverse (-)

66698056 .. 66698460

Gene Structure 405 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 405 bp

ATGCTACGCCCATGTGCTCGCGCGTGTCATAGGACCTTCACCTCAATCAACCATCCGGTTTCTCCCAGCCTCAACCTGCAAACGAACAATCTTCTCGGCGAAGTAGGGGCCCTGGCCACGCGCGGCCAACTCAACGAAGCACTCTCACTCTTCTACACTCTTCAACCGCCACCAACTCAAACTCACTCCAACCAAACCTACGCCACTCTCTTCCACGCATGCGCTCGCCACCATTCCCTCCAACAAGGCCTCTCTCTGCACCATTACATGCTTGCCCACAACCCCATCACTCCTCCTGACCTCTTTGTCTCCAACCACCTCATCAACGTGTACGCCAAATTTGGCCACTTAGACCATGCCCACCAATTGTTCGATGAAATGCCCAGAAGAAACCTCGCCACCTGA

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 PPR_3

Protein Analysis

135

Amino Acids

15.08

Weight (kDa)

8.6

Isoelectric Point (pI)

59.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	99 - 132	5.8e-07	PPR repeat family
PPR	PF01535	105 - 131	3.1e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0001522)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G71420
fragaria_vesca	FvH4_2g00530 FvH4_2g00530 FvH4_2g00560 FvH4_2g00560 FvH4_2g00560 FvH4_2g00560
malus_domestica	MD05G1002500.v1.1
prunus_persica	Prupe.8G005700_v2.0.a1
pyrus_communis	pycom05g00240
rosa_chinensis	RchiOBHm_Chr6g0250571 RchiOBHm_Chr6g0250641 RchiOBHm_Chr6g0250661 RchiOBHm_Chr6g0250741 RchiOBHm_Chr6g0250751 RchiOBHm_Chr6g0250881 RchiOBHm_Chr6g0250901 RchiOBHm_Chr6g0250941 RchiOBHm_Chr6g0251021
rosa_laevigata	RLG00000001886 RLG00000015490 RLG00000015491 RLG00000015495 RLG00000015496 RLG00000015497 RLG00000015516 RLG00000015517 RLG00000015521 RLG00000015534
rosa_multiflora	Rmu_co8213794.1_g000001 Rmu_co8225142.1_g000001 Rmu_co8465043.1_g000001 Rmu_sc0001209.1_g000010 Rmu_sc0001209.1_g000028 Rmu_sc0001209.1_g000030 Rmu_sc0003527.1_g000008 Rmu_sc0026821.1_g000002 Rmu_sc0031313.1_g000001 Rmu_sc0037610.1_g000001
rosa_roxburghii	Rroxscaffold_7G00217150
rosa_rugosa	Rorug05G0498000 Rorug05G0499000 Rorug05G0499100 Rorug05G0499400
rosa_samantha	Rh6AG006800 Rh6AG007100 Rh6BG003500 Rh6BG003800 Rh6DG005100
rosa_wichuraiana	Rw6G000790 Rw6G000840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	305
Acc36I	ACCTGC	1 cut(s)	84
AccII	CGCG	4 cut(s)	21, 23, 121, 123
AciI	CCGC	2 cut(s)	123, 167
AcoI	YGGCCR	3 cut(s)	114, 124, 343
AcsI	RAATTY	1 cut(s)	338
AfaI	GTAC	1 cut(s)	332
AflIII	ACRYGT	1 cut(s)	327
AgsI	TTSAA	1 cut(s)	164
AjnI	CCWGG	1 cut(s)	111
Alw21I	GWGCWC	1 cut(s)	19
Alw26I	GTCTC	1 cut(s)	313
AoxI	GGCC	5 cut(s)	108, 114, 124, 247, 343
ApaI	GGGCCC	1 cut(s)	112
ApoI	RAATTY	1 cut(s)	338
AspLEI	GCGC	3 cut(s)	23, 123, 224
AspS9I	GGNCC	3 cut(s)	33, 108, 109
AsuHPI	GGTGA	1 cut(s)	31
AvaII	GGWCC	1 cut(s)	33
BaeGI	GKGCMC	1 cut(s)	112
BalI	TGGCCA	2 cut(s)	116, 345
BanII	GRGCYC	1 cut(s)	112
Bbv12I	GWGCWC	1 cut(s)	19
BccI	CCATC	2 cut(s)	60, 293
BciT130I	CCWGG	1 cut(s)	113
BcoDI	GTCTC	1 cut(s)	313
BfuAI	ACCTGC	1 cut(s)	84
BisI	GCNGC	1 cut(s)	124
BlsI	GCNGC	1 cut(s)	125
Bme1390I	CCNGG	1 cut(s)	113
Bme18I	GGWCC	1 cut(s)	33
BmgT120I	GGNCC	3 cut(s)	33, 108, 109
BmiI	GGNNCC	2 cut(s)	109, 110
BmrFI	CCNGG	1 cut(s)	113
BsaJI	CCNNGG	1 cut(s)	111
BsaWI	WCCGGW	1 cut(s)	55
BseBI	CCWGG	1 cut(s)	113
BseDI	CCNNGG	1 cut(s)	111
BseGI	GGATG	1 cut(s)	52
BseRI	GAGGAG	1 cut(s)	282
BseSI	GKGCMC	1 cut(s)	112
BseYI	CCCAGC	1 cut(s)	65
BsgI	GTGCAG	1 cut(s)	242
Bsh1236I	CGCG	4 cut(s)	21, 23, 121, 123
BshFI	GGCC	5 cut(s)	110, 116, 126, 249, 345
BsiHKAI	GWGCWC	1 cut(s)	19
BsiSI	CCGG	1 cut(s)	56
BsmAI	GTCTC	1 cut(s)	313
BsnI	GGCC	5 cut(s)	110, 116, 126, 249, 345
Bsp120I	GGGCCC	1 cut(s)	108
Bsp1286I	GDGCHC	2 cut(s)	19, 112
BspACI	CCGC	2 cut(s)	123, 167
BspANI	GGCC	5 cut(s)	110, 116, 126, 249, 345
BspFNI	CGCG	4 cut(s)	21, 23, 121, 123
BspLI	GGNNCC	2 cut(s)	109, 110
BspMI	ACCTGC	1 cut(s)	84
BssECI	CCNNGG	1 cut(s)	111
Bst2UI	CCWGG	1 cut(s)	113
Bst6I	CTCTTC	3 cut(s)	155, 165, 215
BstC8I	GCNNGC	4 cut(s)	19, 220, 226, 273
BstDEI	CTNAG	1 cut(s)	349
BstF5I	GGATG	1 cut(s)	52
BstFNI	CGCG	4 cut(s)	21, 23, 121, 123
BstHHI	GCGC	3 cut(s)	23, 123, 224
BstMAI	GTCTC	1 cut(s)	313
BstNI	CCWGG	1 cut(s)	113
BstNSI	RCATGY	2 cut(s)	222, 271
BstSCI	CCNGG	1 cut(s)	111
BstSLI	GKGCMC	1 cut(s)	112
BstUI	CGCG	4 cut(s)	21, 23, 121, 123
BsuRI	GGCC	5 cut(s)	110, 116, 126, 249, 345
BtsCI	GGATG	1 cut(s)	52
BveI	ACCTGC	1 cut(s)	84
Cac8I	GCNNGC	4 cut(s)	19, 220, 226, 273
CfoI	GCGC	3 cut(s)	23, 123, 224
Cfr13I	GGNCC	3 cut(s)	33, 108, 109
Csp6I	GTAC	1 cut(s)	331
CviAII	CATG	4 cut(s)	12, 219, 268, 356
CviJI	RGCY	6 cut(s)	69, 110, 116, 126, 249, 345
CviKI_1	RGCY	6 cut(s)	69, 110, 116, 126, 249, 345
CviQI	GTAC	1 cut(s)	331
DdeI	CTNAG	1 cut(s)	349
DrdI	GACNNNNNNGTC	1 cut(s)	305
DseDI	GACNNNNNNGTC	1 cut(s)	305
EaeI	YGGCCR	3 cut(s)	114, 124, 343
Eam1104I	CTCTTC	3 cut(s)	155, 165, 215
EarI	CTCTTC	3 cut(s)	155, 165, 215
Eco147I	AGGCCT	1 cut(s)	249
Eco24I	GRGCYC	1 cut(s)	112
Eco47I	GGWCC	1 cut(s)	33
EcoO109I	RGGNCCY	3 cut(s)	33, 108, 109
EcoRII	CCWGG	1 cut(s)	111
EcoT38I	GRGCYC	1 cut(s)	112
FaeI	CATG	4 cut(s)	15, 222, 271, 359
FaiI	YATR	5 cut(s)	13, 30, 220, 269, 357
FatI	CATG	4 cut(s)	11, 218, 267, 355
Fnu4HI	GCNGC	1 cut(s)	124
FokI	GGATG	1 cut(s)	39
FriOI	GRGCYC	1 cut(s)	112
Fsp4HI	GCNGC	1 cut(s)	124
GlaI	GCGC	3 cut(s)	22, 122, 223
GluI	GCNGC	1 cut(s)	124
GsaI	CCCAGC	1 cut(s)	69
HaeIII	GGCC	5 cut(s)	110, 116, 126, 249, 345
HapII	CCGG	1 cut(s)	56
HhaI	GCGC	3 cut(s)	23, 123, 224
Hin1II	CATG	4 cut(s)	15, 222, 271, 359
Hin6I	GCGC	3 cut(s)	21, 121, 222
HinP1I	GCGC	3 cut(s)	21, 121, 222
HpaII	CCGG	1 cut(s)	56
HphI	GGTGA	1 cut(s)	31
Hpy166II	GTNNAC	1 cut(s)	331
Hpy188III	TCNNGA	1 cut(s)	296
Hpy8I	GTNNAC	1 cut(s)	331
HpyAV	CCTTC	1 cut(s)	46
HpyCH4IV	ACGT	1 cut(s)	327
HpyCH4V	TGCA	2 cut(s)	79, 259
HpyF3I	CTNAG	1 cut(s)	349
HpySE526I	ACGT	1 cut(s)	327
Hsp92II	CATG	4 cut(s)	15, 222, 271, 359
HspAI	GCGC	3 cut(s)	21, 121, 222
LpnPI	CCDG	7 cut(s)	69, 79, 89, 98, 125, 309, 397
MaeII	ACGT	1 cut(s)	327
MboII	GAAGA	5 cut(s)	83, 142, 152, 202, 399
MfeI	CAATTG	1 cut(s)	365
MhlI	GDGCHC	2 cut(s)	19, 112
MlsI	TGGCCA	2 cut(s)	116, 345
MluCI	AATT	2 cut(s)	338, 365
MluNI	TGGCCA	2 cut(s)	116, 345
MmeI	TCCRAC	3 cut(s)	213, 265, 336
MnlI	CCTC	8 cut(s)	52, 80, 248, 260, 303, 311, 329, 404
Mox20I	TGGCCA	2 cut(s)	116, 345
MscI	TGGCCA	2 cut(s)	116, 345
MslI	CAYNNNNRTG	1 cut(s)	326
Msp20I	TGGCCA	2 cut(s)	116, 345
MspI	CCGG	1 cut(s)	56
MspR9I	CCNGG	1 cut(s)	113
MunI	CAATTG	1 cut(s)	365
MvaI	CCWGG	1 cut(s)	113
MvnI	CGCG	4 cut(s)	21, 23, 121, 123
NlaIII	CATG	4 cut(s)	15, 222, 271, 359
NlaIV	GGNNCC	2 cut(s)	109, 110
NmeAIII	GCCGAG	1 cut(s)	75
NspI	RCATGY	2 cut(s)	222, 271
PaeI	GCATGC	1 cut(s)	222
PceI	AGGCCT	1 cut(s)	249
PkrI	GCNGC	1 cut(s)	125
PpuMI	RGGWCCY	1 cut(s)	33
Psp5II	RGGWCCY	1 cut(s)	33
Psp6I	CCWGG	1 cut(s)	111
PspFI	CCCAGC	1 cut(s)	65
PspGI	CCWGG	1 cut(s)	111
PspN4I	GGNNCC	2 cut(s)	109, 110
PspOMI	GGGCCC	1 cut(s)	108
PspPI	GGNCC	3 cut(s)	33, 108, 109
PspPPI	RGGWCCY	1 cut(s)	33
RsaI	GTAC	1 cut(s)	332
RsaNI	GTAC	1 cut(s)	331
RseI	CAYNNNNRTG	1 cut(s)	326
SatI	GCNGC	1 cut(s)	124
Sau96I	GGNCC	3 cut(s)	33, 108, 109
ScrFI	CCNGG	1 cut(s)	113
SduI	GDGCHC	2 cut(s)	19, 112
SetI	ASST	9 cut(s)	38, 44, 78, 200, 303, 321, 330, 396, 404
SinI	GGWCC	1 cut(s)	33
SmiMI	CAYNNNNRTG	1 cut(s)	326
SphI	GCATGC	1 cut(s)	222
Sse9I	AATT	2 cut(s)	338, 365
SseBI	AGGCCT	1 cut(s)	249
SsiI	CCGC	2 cut(s)	123, 167
StuI	AGGCCT	1 cut(s)	249
StyD4I	CCNGG	1 cut(s)	111
TaiI	ACGT	1 cut(s)	330
TaqI	TCGA	1 cut(s)	372
TasI	AATT	2 cut(s)	338, 365
TauI	GCSGC	1 cut(s)	126
TspDTI	ATGAA	1 cut(s)	390
VpaK11BI	GGWCC	1 cut(s)	33
XapI	RAATTY	1 cut(s)	338
XceI	RCATGY	2 cut(s)	222, 271

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