Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000589

Physical Location & Seq

Genomic Coordinates Forward (+)

3133159 .. 3133510

Gene Structure 352 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG020300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 352 bp

ATGGTGACTACTATGGTGCGTGTCATTTCTGCTTGTGCAAAGTTGAAGGATGTTGCGTTGAGTGAGAGGGTGTTGGGCTTACATGGGGGAGTCTGGACTGAAGAGTGTAATATGCTTATGGTGAATTCACTTGTTGATATGTTTATGAAATTTGGGGATACTAGTGCTGCAAAGTGTCTTTTTGATGAACGTGTGGATAAAAACTTGGTTCTTTACTGTAGGGATTTGTCAAATTATGTGCGCCAGGGACTGGCTGGTGAAGCAGTTTCGGTGATGGGTGAAATGCTACAACAGGGCCTAAGACCCGACAAGGTTGCCATTTTGTCTGCAATCTTAGCTTTCGCACAACTAA

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

117

Amino Acids

12.86

Weight (kDa)

5.75

Isoelectric Point (pI)

27.61

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

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: OG0000589)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22690 AT3G22690 AT3G22690
fragaria_vesca	FvH4_4g12100 FvH4_4g12100 FvH4_4g12100
malus_domestica	MD07G1198500.v1.1 MD12G1181700.v1.1
prunus_persica	Prupe.1G018800_v2.0.a1
pyrus_communis	pycom07g16490
rosa_chinensis	RchiOBHm_Chr1g0328851 RchiOBHm_Chr1g0329061 RchiOBHm_Chr1g0329101 RchiOBHm_Chr1g0329141 RchiOBHm_Chr2g0124781 RchiOBHm_Chr3g0482411 RchiOBHm_Chr3g0482461 RchiOBHm_Chr4g0386511 RchiOBHm_Chr4g0386531 RchiOBHm_Chr4g0386651 RchiOBHm_Chr4g0386671 RchiOBHm_Chr4g0386751 RchiOBHm_Chr4g0386781 RchiOBHm_Chr4g0386861 RchiOBHm_Chr4g0386891 RchiOBHm_Chr4g0386911 RchiOBHm_Chr4g0386991 RchiOBHm_Chr4g0387041 RchiOBHm_Chr4g0387171 RchiOBHm_Chr4g0387241 RchiOBHm_Chr4g0387301 RchiOBHm_Chr4g0387341 RchiOBHm_Chr4g0387441 RchiOBHm_Chr4g0388061 RchiOBHm_Chr4g0389241 RchiOBHm_Chr4g0389361
rosa_laevigata	RLG00000010137 RLG00000010138 RLG00000010145 RLG00000010146 RLG00000018820 RLG00000023352 RLG00000029915
rosa_multiflora	Rmu_co8009444.1_g000001 Rmu_co8455349.1_g000001 Rmu_sc0001375.1_g000001 Rmu_sc0001942.1_g000049 Rmu_sc0001942.1_g000077 Rmu_sc0002939.1_g000001 Rmu_sc0003413.1_g000068 Rmu_sc0003413.1_g000075 Rmu_sc0006571.1_g000008 Rmu_sc0006571.1_g000013 Rmu_sc0006571.1_g000016 Rmu_sc0006648.1_g000004 Rmu_sc0008380.1_g000005 Rmu_sc0009161.1_g000006 Rmu_sc0009161.1_g000007 Rmu_sc0010272.1_g000019 Rmu_sc0011657.1_g000016 Rmu_sc0028698.1_g000001
rosa_roxburghii	Rroxscaffold_2G00119680 Rroxscaffold_2G00119690 Rroxscaffold_5G00334120
rosa_rugosa	Rorug02G0252500 Rorug02G0252500 Rorug03G0196200 Rorug03G0307500 Rorug03G0307800 Rorug03G0308200 Rorug03G0308400 Rorug03G0365200.1 Rorug07G0142900
rosa_samantha	Rh2AG312000 Rh2BG320300 Rh2CG300300 Rh4DG011500 Rh4DG020300
rosa_wichuraiana	Rw2G025200 Rw3G022270 Rw4G001010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	250
AcsI	RAATTY	2 cut(s)	124, 149
AcuI	CTGAAG	1 cut(s)	120
AfiI	CCNNNNNNNGG	1 cut(s)	250
AflIII	ACRYGT	1 cut(s)	190
AgsI	TTSAA	1 cut(s)	46
AhlI	ACTAGT	1 cut(s)	161
AjnI	CCWGG	1 cut(s)	243
AluBI	AGCT	1 cut(s)	338
AluI	AGCT	1 cut(s)	338
AlwNI	CAGNNNCTG	1 cut(s)	250
AoxI	GGCC	1 cut(s)	295
ApeKI	GCWGC	1 cut(s)	167
ApoI	RAATTY	2 cut(s)	124, 149
AspLEI	GCGC	1 cut(s)	243
AspS9I	GGNCC	1 cut(s)	295
AsuHPI	GGTGA	5 cut(s)	16, 133, 269, 283, 290
BbvI	GCAGC	1 cut(s)	154
BccI	CCATC	1 cut(s)	268
BcgI	CGANNNNNNTGC	2 cut(s)	296, 330
BciT130I	CCWGG	1 cut(s)	245
BciVI	GTATCC	1 cut(s)	151
BcuI	ACTAGT	1 cut(s)	161
BfaI	CTAG	1 cut(s)	162
BfmI	CTRYAG	1 cut(s)	217
BfuI	GTATCC	1 cut(s)	151
BisI	GCNGC	1 cut(s)	168
BlsI	GCNGC	1 cut(s)	169
Bme1390I	CCNGG	1 cut(s)	245
BmgT120I	GGNCC	1 cut(s)	295
BmrFI	CCNGG	1 cut(s)	245
BsaJI	CCNNGG	1 cut(s)	244
Bsc4I	CCNNNNNNNGG	1 cut(s)	250
Bse1I	ACTGG	1 cut(s)	255
BseBI	CCWGG	1 cut(s)	245
BseDI	CCNNGG	1 cut(s)	244
BseGI	GGATG	1 cut(s)	55
BseLI	CCNNNNNNNGG	1 cut(s)	250
BseNI	ACTGG	1 cut(s)	255
BseXI	GCAGC	1 cut(s)	154
BshFI	GGCC	1 cut(s)	297
BslFI	GGGAC	1 cut(s)	261
BslI	CCNNNNNNNGG	1 cut(s)	250
BsmFI	GGGAC	1 cut(s)	261
BsnI	GGCC	1 cut(s)	297
BspANI	GGCC	1 cut(s)	297
BsrI	ACTGG	1 cut(s)	255
BssECI	CCNNGG	1 cut(s)	244
Bst2UI	CCWGG	1 cut(s)	245
Bst4CI	ACNGT	1 cut(s)	218
Bst6I	CTCTTC	1 cut(s)	96
BstDEI	CTNAG	2 cut(s)	299, 334
BstF5I	GGATG	1 cut(s)	55
BstHHI	GCGC	1 cut(s)	243
BstMWI	GCNNNNNNNGC	2 cut(s)	260, 335
BstNI	CCWGG	1 cut(s)	245
BstSCI	CCNGG	1 cut(s)	243
BstSFI	CTRYAG	1 cut(s)	217
BstV1I	GCAGC	1 cut(s)	154
BsuI	GTATCC	1 cut(s)	151
BsuRI	GGCC	1 cut(s)	297
BtsCI	GGATG	1 cut(s)	55
CaiI	CAGNNNCTG	1 cut(s)	250
CfoI	GCGC	1 cut(s)	243
Cfr13I	GGNCC	1 cut(s)	295
CviAII	CATG	1 cut(s)	83
CviJI	RGCY	4 cut(s)	78, 254, 297, 338
CviKI_1	RGCY	4 cut(s)	78, 254, 297, 338
DdeI	CTNAG	2 cut(s)	299, 334
Eam1104I	CTCTTC	1 cut(s)	96
EarI	CTCTTC	1 cut(s)	96
Eco57I	CTGAAG	1 cut(s)	120
EcoO109I	RGGNCCY	1 cut(s)	295
EcoRI	GAATTC	1 cut(s)	124
EcoRII	CCWGG	1 cut(s)	243
FaeI	CATG	1 cut(s)	86
FaiI	YATR	7 cut(s)	14, 84, 113, 119, 140, 146, 237
FaqI	GGGAC	1 cut(s)	261
FatI	CATG	1 cut(s)	82
Fnu4HI	GCNGC	1 cut(s)	168
FokI	GGATG	1 cut(s)	62
Fsp4HI	GCNGC	1 cut(s)	168
FspBI	CTAG	1 cut(s)	162
GlaI	GCGC	1 cut(s)	242
GluI	GCNGC	1 cut(s)	168
HaeIII	GGCC	1 cut(s)	297
HhaI	GCGC	1 cut(s)	243
Hin1II	CATG	1 cut(s)	86
Hin6I	GCGC	1 cut(s)	241
HinP1I	GCGC	1 cut(s)	241
HinfI	GANTC	1 cut(s)	90
HphI	GGTGA	5 cut(s)	16, 133, 269, 283, 290
Hpy188III	TCNNGA	1 cut(s)	94
HpyAV	CCTTC	1 cut(s)	40
HpyCH4III	ACNGT	1 cut(s)	218
HpyCH4IV	ACGT	1 cut(s)	190
HpyCH4V	TGCA	3 cut(s)	38, 170, 329
HpyF10VI	GCNNNNNNNGC	2 cut(s)	260, 335
HpyF3I	CTNAG	2 cut(s)	299, 334
HpySE526I	ACGT	1 cut(s)	190
Hsp92II	CATG	1 cut(s)	86
HspAI	GCGC	1 cut(s)	241
LpnPI	CCDG	6 cut(s)	79, 230, 236, 240, 257, 278
Lsp1109I	GCAGC	1 cut(s)	154
MaeI	CTAG	1 cut(s)	162
MaeII	ACGT	1 cut(s)	190
MaeIII	GTNAC	1 cut(s)	4
MboII	GAAGA	1 cut(s)	113
MluCI	AATT	3 cut(s)	124, 149, 232
MlyI	GAGTC	1 cut(s)	99
MnlI	CCTC	1 cut(s)	60
MspR9I	CCNGG	1 cut(s)	245
MvaI	CCWGG	1 cut(s)	245
MwoI	GCNNNNNNNGC	2 cut(s)	260, 335
NlaIII	CATG	1 cut(s)	86
NmuCI	GTSAC	1 cut(s)	4
PflMI	CCANNNNNTGG	1 cut(s)	250
PkrI	GCNGC	1 cut(s)	169
PleI	GAGTC	1 cut(s)	98
PpsI	GAGTC	1 cut(s)	98
Psp6I	CCWGG	1 cut(s)	243
PspGI	CCWGG	1 cut(s)	243
PspPI	GGNCC	1 cut(s)	295
PstNI	CAGNNNCTG	1 cut(s)	250
SatI	GCNGC	1 cut(s)	168
Sau96I	GGNCC	1 cut(s)	295
SchI	GAGTC	1 cut(s)	99
ScrFI	CCNGG	1 cut(s)	245
SetI	ASST	3 cut(s)	193, 315, 340
SfcI	CTRYAG	1 cut(s)	217
SpeI	ACTAGT	1 cut(s)	161
Sse9I	AATT	3 cut(s)	124, 149, 232
SspMI	CTAG	1 cut(s)	162
StyD4I	CCNGG	1 cut(s)	243
TaaI	ACNGT	1 cut(s)	218
TaiI	ACGT	1 cut(s)	193
TasI	AATT	3 cut(s)	124, 149, 232
TseFI	GTSAC	1 cut(s)	4
TseI	GCWGC	1 cut(s)	167
Tsp45I	GTSAC	1 cut(s)	4
TspDTI	ATGAA	2 cut(s)	161, 201
Van91I	CCANNNNNTGG	1 cut(s)	250
XapI	RAATTY	2 cut(s)	124, 149
XcmI	CCANNNNNNNNNTGG	1 cut(s)	251
XspI	CTAG	1 cut(s)	162

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