Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0002518

Physical Location & Seq

Genomic Coordinates Forward (+)

11755702 .. 11756279

Gene Structure 578 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016978

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGCCAATAGTCGCCCATGGGGATGTGGGGGGAGCACTACTTGGTGAAACCAGTCACCCCGAATACAATGAGATTAAGAAGGCGTTGGACGATCTTCTAAACAGATTGCAGGATCATGGTTATCAGCCAAACCTGAATTCGGTGGAATATGATGTTGGGGATGAAGAGAAGATGCATATATTGCTTGCTCATAGCGAGAAGCTGGCTTTGTCATACGCATTACTCAGCGCAGATTCTGGTTCCACCATTAAGATCATCAAGAACATGAAGATATGTGAAGACGTACCGTCATGCCTTCATGTGTGGTACGTGCATCACTGGAAGGCATACTATTGTGAGAGATAA

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

115

Amino Acids

12.91

Weight (kDa)

5.5

Isoelectric Point (pI)

45.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DYW_deaminase	PF14432	40 - 99	1.3e-18	DYW family of nucleic acid deaminases

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0002518)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09190
fragaria_vesca	FvH4_1g08040
malus_domestica	MD02G1085000.v1.1
prunus_persica	Prupe.7G204600_v2.0.a1
pyrus_communis	pycom02g06780 pycom02g20400
rosa_chinensis	RchiOBHm_Chr1g0349371 RchiOBHm_Chr1g0365421 RchiOBHm_Chr2g0094071 RchiOBHm_Chr2g0100501 RchiOBHm_Chr2g0145241 RchiOBHm_Chr5g0027681
rosa_laevigata	RLG00000016453 RLG00000016978 RLG00000028565
rosa_multiflora	Rmu_sc0000528.1_g000021 Rmu_sc0001942.1_g000078 Rmu_sc0001989.1_g000005 Rmu_sc0001989.1_g000006 Rmu_sc0002834.1_g000001 Rmu_sc0010460.1_g000009 Rmu_sc0015757.1_g000001 Rmu_sc0023774.1_g000001 Rmu_ssc0000469.1_g000004
rosa_roxburghii	Rroxscaffold_1G00065660 Rroxscaffold_2G00147500
rosa_rugosa	Rorug01G0191200 Rorug01G0245800 Rorug01G0404500 Rorug02G0040700 Rorug02G0042900 Rorug02G0088700 Rorug02G0306900 Rorug02G0425200 RorugPtG0000800
rosa_samantha	Rh1BG121500 Rh2BG141500 Rh2BG455200 Rh2CG090800 Rh2CG143700 Rh2DG465200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	120
AcsI	RAATTY	1 cut(s)	136
AfaI	GTAC	2 cut(s)	285, 308
AfiI	CCNNNNNNNGG	1 cut(s)	139
AhdI	GACNNNNNGTC	1 cut(s)	286
AjuI	GAANNNNNNNTTGG	4 cut(s)	121, 138, 153, 170
AluBI	AGCT	1 cut(s)	202
AluI	AGCT	1 cut(s)	202
Alw21I	GWGCWC	1 cut(s)	37
AlwI	GGATC	1 cut(s)	120
AlwNI	CAGNNNCTG	1 cut(s)	236
ApoI	RAATTY	1 cut(s)	136
AspLEI	GCGC	1 cut(s)	230
AsuHPI	GGTGA	2 cut(s)	47, 56
BbsI	GAAGAC	1 cut(s)	285
Bbv12I	GWGCWC	1 cut(s)	37
BmeRI	GACNNNNNGTC	1 cut(s)	286
BmiI	GGNNCC	1 cut(s)	241
BmsI	GCATC	2 cut(s)	162, 322
BpiI	GAAGAC	1 cut(s)	285
BsaAI	YACGTR	1 cut(s)	310
BsaJI	CCNNGG	1 cut(s)	16
Bsc4I	CCNNNNNNNGG	1 cut(s)	139
Bse1I	ACTGG	2 cut(s)	51, 323
BseDI	CCNNGG	1 cut(s)	16
BseGI	GGATG	2 cut(s)	28, 166
BseLI	CCNNNNNNNGG	1 cut(s)	139
BseMII	CTCAG	1 cut(s)	238
BseNI	ACTGG	2 cut(s)	51, 323
BsiHKAI	GWGCWC	1 cut(s)	37
BslI	CCNNNNNNNGG	1 cut(s)	139
Bsp1286I	GDGCHC	1 cut(s)	37
Bsp143I	GATC	3 cut(s)	91, 112, 252
Bsp19I	CCATGG	1 cut(s)	16
BspCNI	CTCAG	1 cut(s)	237
BspLI	GGNNCC	1 cut(s)	241
BspPI	GGATC	1 cut(s)	120
BsrI	ACTGG	2 cut(s)	51, 323
BssECI	CCNNGG	1 cut(s)	16
BssMI	GATC	3 cut(s)	91, 112, 252
BssT1I	CCWWGG	1 cut(s)	16
Bst4CI	ACNGT	1 cut(s)	288
Bst6I	CTCTTC	1 cut(s)	159
BstAPI	GCANNNNNTGC	1 cut(s)	181
BstBAI	YACGTR	1 cut(s)	310
BstC8I	GCNNGC	2 cut(s)	186, 204
BstDEI	CTNAG	1 cut(s)	224
BstDSI	CCRYGG	1 cut(s)	16
BstF5I	GGATG	2 cut(s)	28, 166
BstHHI	GCGC	1 cut(s)	230
BstKTI	GATC	3 cut(s)	94, 115, 255
BstMBI	GATC	3 cut(s)	91, 112, 252
BstMWI	GCNNNNNNNGC	1 cut(s)	181
BstV2I	GAAGAC	1 cut(s)	285
BtgI	CCRYGG	1 cut(s)	16
BtsCI	GGATG	2 cut(s)	28, 166
BtsIMutI	CAGTG	1 cut(s)	316
Cac8I	GCNNGC	2 cut(s)	186, 204
CaiI	CAGNNNCTG	1 cut(s)	236
CfoI	GCGC	1 cut(s)	230
Csp6I	GTAC	2 cut(s)	284, 307
CviAII	CATG	5 cut(s)	17, 116, 265, 291, 299
CviJI	RGCY	3 cut(s)	127, 202, 206
CviKI_1	RGCY	3 cut(s)	127, 202, 206
CviQI	GTAC	2 cut(s)	284, 307
DdeI	CTNAG	1 cut(s)	224
DpnI	GATC	3 cut(s)	93, 114, 254
DpnII	GATC	3 cut(s)	91, 112, 252
DriI	GACNNNNNGTC	1 cut(s)	286
Eam1104I	CTCTTC	1 cut(s)	159
Eam1105I	GACNNNNNGTC	1 cut(s)	286
EarI	CTCTTC	1 cut(s)	159
Eco130I	CCWWGG	1 cut(s)	16
EcoRI	GAATTC	1 cut(s)	136
EcoT14I	CCWWGG	1 cut(s)	16
EcoT22I	ATGCAT	1 cut(s)	177
ErhI	CCWWGG	1 cut(s)	16
FaeI	CATG	5 cut(s)	20, 119, 268, 294, 302
FatI	CATG	5 cut(s)	16, 115, 264, 290, 298
FokI	GGATG	2 cut(s)	35, 173
GlaI	GCGC	1 cut(s)	229
HhaI	GCGC	1 cut(s)	230
Hin1II	CATG	5 cut(s)	20, 119, 268, 294, 302
Hin6I	GCGC	1 cut(s)	228
HinP1I	GCGC	1 cut(s)	228
HinfI	GANTC	1 cut(s)	233
HphI	GGTGA	2 cut(s)	47, 56
Hpy188III	TCNNGA	1 cut(s)	259
HpyAV	CCTTC	3 cut(s)	73, 305, 316
HpyCH4III	ACNGT	1 cut(s)	288
HpyCH4IV	ACGT	2 cut(s)	282, 309
HpyCH4V	TGCA	3 cut(s)	109, 175, 313
HpyF10VI	GCNNNNNNNGC	1 cut(s)	181
HpyF3I	CTNAG	1 cut(s)	224
HpySE526I	ACGT	2 cut(s)	282, 309
Hsp92II	CATG	5 cut(s)	20, 119, 268, 294, 302
HspAI	GCGC	1 cut(s)	228
Kzo9I	GATC	3 cut(s)	91, 112, 252
LmnI	GCTCC	1 cut(s)	32
LpnPI	CCDG	6 cut(s)	64, 95, 146, 188, 222, 304
LweI	GCATC	2 cut(s)	162, 322
MaeII	ACGT	2 cut(s)	282, 309
MaeIII	GTNAC	1 cut(s)	53
MalI	GATC	3 cut(s)	93, 114, 254
MboI	GATC	3 cut(s)	91, 112, 252
MboII	GAAGA	5 cut(s)	86, 176, 181, 280, 290
MhlI	GDGCHC	1 cut(s)	37
MluCI	AATT	1 cut(s)	136
MmeI	TCCRAC	1 cut(s)	66
Mph1103I	ATGCAT	1 cut(s)	177
MseI	TTAA	2 cut(s)	75, 249
MslI	CAYNNNNRTG	1 cut(s)	21
MwoI	GCNNNNNNNGC	1 cut(s)	181
NcoI	CCATGG	1 cut(s)	16
NdeII	GATC	3 cut(s)	91, 112, 252
NlaIII	CATG	5 cut(s)	20, 119, 268, 294, 302
NlaIV	GGNNCC	1 cut(s)	241
NmuCI	GTSAC	1 cut(s)	53
NsiI	ATGCAT	1 cut(s)	177
PfeI	GAWTC	1 cut(s)	233
Ppu21I	YACGTR	1 cut(s)	310
PspN4I	GGNNCC	1 cut(s)	241
PstNI	CAGNNNCTG	1 cut(s)	236
RsaI	GTAC	2 cut(s)	285, 308
RsaNI	GTAC	2 cut(s)	284, 307
RseI	CAYNNNNRTG	1 cut(s)	21
SaqAI	TTAA	2 cut(s)	75, 249
Sau3AI	GATC	3 cut(s)	91, 112, 252
SduI	GDGCHC	1 cut(s)	37
SetI	ASST	4 cut(s)	135, 204, 285, 312
SfaNI	GCATC	2 cut(s)	162, 322
SmiMI	CAYNNNNRTG	1 cut(s)	21
Sse9I	AATT	1 cut(s)	136
StyI	CCWWGG	1 cut(s)	16
TaaI	ACNGT	1 cut(s)	288
TaiI	ACGT	2 cut(s)	285, 312
TasI	AATT	1 cut(s)	136
TfiI	GAWTC	1 cut(s)	233
Tru1I	TTAA	2 cut(s)	75, 249
Tru9I	TTAA	2 cut(s)	75, 249
TscAI	CASTG	1 cut(s)	323
TseFI	GTSAC	1 cut(s)	53
Tsp45I	GTSAC	1 cut(s)	53
TspDTI	ATGAA	3 cut(s)	177, 281, 287
TspRI	CASTG	1 cut(s)	323
XapI	RAATTY	1 cut(s)	136
Zsp2I	ATGCAT	1 cut(s)	177

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