Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0008101

Physical Location & Seq

Genomic Coordinates Forward (+)

66649625 .. 66651060

Gene Structure 1436 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015483

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGCCGATACAGAATGTAGTGCATTGGAATTTAATGATTGCAATTTACGCTAAAAATGGATCTGCGGCGGAGGGGTTGAATTGTTTTAATCTCATGAGAAGGGCTGGAGTTTATCCTGATGATGGCACTGTGGTGTCTTTGCTTCAAGCTTGTGAGAGCTTAGGTTTAGGGAAAGTAGCAGAGAGTGTCCATGGTTTAATCATCAATTGTGGTCTTACTGCAAATGTCAGAGTTGCAACTGGAGTTCTAGATTTGTATACGAAGTTGGGGAGATTAGATTATTCACTTAAGGTTTTCATGGAGGTTATGCTACGCATCGGTATGGATGAGAAGCTATGGAGATCTTTGAAAGCATGGTTTGGAAAGTTGGAAGAAGTGATTGAAAAGATCCGGAAGGCTGGATTTGTGTCTCAAATTGAATTTATTCTACATGATGTTGAAGAGGCAGTGAAAGAAGATATGATCAGTAAGCACAGTGAGAAATTAGCCATTGCATTTGGGCTTTTGGTTATTAATGCTGGCATGCCAATTATTATTACCAAGAACCTTCGAATTTGTGGTGACTGTCACGGCGCTGTAAAGTTCATATCATTGATTGAGAAGCGAACTATCCTAATTCGAGATTCTAAGCGGTTCCATCATCTTACTAATGTTATTAGTTTCCCATGGCACGTCGAAGCCAATATTCGAATACTGGCAGCTGACCAGGGAAATGACAAATGGTAA

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

242

Amino Acids

27.0

Weight (kDa)

8.55

Isoelectric Point (pI)

38.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	5 - 51	1.7e-08	PPR repeat family
DYW_deaminase	PF14432	134 - 217	9.8e-31	DYW family of nucleic acid deaminases

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: OG0008101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40410
fragaria_vesca	FvH4_2g00730
malus_domestica	MD05G1003000.v1.1 MD10G1003900.v1.1
prunus_persica	Prupe.8G006400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0251111
rosa_laevigata	RLG00000015483
rosa_multiflora	Rmu_co8188818.1_g000001 Rmu_co8231405.1_g000001 Rmu_sc0002219.1_g000009 Rmu_sc0002219.1_g000010 Rmu_sc0002219.1_g000016 Rmu_sc0002219.1_g000017 Rmu_sc0002960.1_g000013 Rmu_sc0011355.1_g000002
rosa_roxburghii	Rroxscaffold_7G00217030
rosa_rugosa	Rorug05G0500400 Rorug05G0500500
rosa_samantha	Rh6AG008600 Rh6AG008700 Rh6AG009100 Rh6BG002600 Rh6DG006400
rosa_wichuraiana	Rw6G000930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	257
AccIII	TCCGGA	1 cut(s)	390
AciI	CCGC	3 cut(s)	65, 68, 631
AclWI	GGATC	2 cut(s)	67, 382
AcsI	RAATTY	3 cut(s)	28, 419, 552
AfiI	CCNNNNNNNGG	1 cut(s)	122
AflII	CTTAAG	1 cut(s)	287
AgsI	TTSAA	6 cut(s)	79, 146, 349, 383, 419, 440
AjiI	CACGTC	1 cut(s)	673
AjnI	CCWGG	1 cut(s)	705
AleI	CACNNNNGTG	1 cut(s)	131
AluBI	AGCT	4 cut(s)	149, 159, 334, 701
AluI	AGCT	4 cut(s)	149, 159, 334, 701
Alw26I	GTCTC	1 cut(s)	414
AlwI	GGATC	2 cut(s)	67, 382
Aor13HI	TCCGGA	1 cut(s)	390
ApeKI	GCWGC	1 cut(s)	698
ApoI	RAATTY	3 cut(s)	28, 419, 552
AseI	ATTAAT	1 cut(s)	513
Asp700I	GAANNNNTTC	1 cut(s)	423
AspLEI	GCGC	1 cut(s)	575
AsuHPI	GGTGA	1 cut(s)	572
AsuII	TTCGAA	2 cut(s)	550, 688
BbvI	GCAGC	1 cut(s)	710
BccI	CCATC	2 cut(s)	116, 645
BceAI	ACGGC	1 cut(s)	586
BciT130I	CCWGG	1 cut(s)	707
BclI	TGATCA	1 cut(s)	462
BcoDI	GTCTC	1 cut(s)	414
BfaI	CTAG	1 cut(s)	248
BfoI	RGCGCY	1 cut(s)	576
BfrI	CTTAAG	1 cut(s)	287
BglII	AGATCT	1 cut(s)	341
BisI	GCNGC	2 cut(s)	66, 699
BlsI	GCNGC	2 cut(s)	67, 700
Bme1390I	CCNGG	1 cut(s)	707
BmgBI	CACGTC	1 cut(s)	673
BmiI	GGNNCC	1 cut(s)	635
BmrFI	CCNGG	1 cut(s)	707
BmsI	GCATC	1 cut(s)	324
BpmI	CTGGAG	2 cut(s)	126, 261
Bpu10I	CCTNAGC	1 cut(s)	160
Bpu14I	TTCGAA	2 cut(s)	550, 688
BsaJI	CCNNGG	3 cut(s)	190, 665, 706
BsaWI	WCCGGW	1 cut(s)	390
Bsc4I	CCNNNNNNNGG	1 cut(s)	122
Bse1I	ACTGG	2 cut(s)	244, 699
Bse3DI	GCAATG	1 cut(s)	489
BseAI	TCCGGA	1 cut(s)	390
BseBI	CCWGG	1 cut(s)	707
BseDI	CCNNGG	3 cut(s)	190, 665, 706
BseGI	GGATG	1 cut(s)	331
BseLI	CCNNNNNNNGG	1 cut(s)	122
BseMI	GCAATG	1 cut(s)	489
BseNI	ACTGG	2 cut(s)	244, 699
BseXI	GCAGC	1 cut(s)	710
BsiSI	CCGG	1 cut(s)	391
BslI	CCNNNNNNNGG	1 cut(s)	122
BsmAI	GTCTC	1 cut(s)	414
Bsp119I	TTCGAA	2 cut(s)	550, 688
Bsp13I	TCCGGA	1 cut(s)	390
Bsp143I	GATC	4 cut(s)	59, 341, 387, 462
Bsp19I	CCATGG	2 cut(s)	190, 665
BspACI	CCGC	3 cut(s)	65, 68, 631
BspEI	TCCGGA	1 cut(s)	390
BspHI	TCATGA	1 cut(s)	93
BspLI	GGNNCC	1 cut(s)	635
BspPI	GGATC	2 cut(s)	67, 382
BspT104I	TTCGAA	2 cut(s)	550, 688
BspTI	CTTAAG	1 cut(s)	287
BsrDI	GCAATG	1 cut(s)	489
BsrI	ACTGG	2 cut(s)	244, 699
BssECI	CCNNGG	3 cut(s)	190, 665, 706
BssMI	GATC	4 cut(s)	59, 341, 387, 462
BssNAI	GTATAC	1 cut(s)	258
BssT1I	CCWWGG	2 cut(s)	190, 665
Bst1107I	GTATAC	1 cut(s)	258
Bst2UI	CCWGG	1 cut(s)	707
Bst4CI	ACNGT	3 cut(s)	130, 476, 566
Bst6I	CTCTTC	1 cut(s)	435
BstAFI	CTTAAG	1 cut(s)	287
BstBI	TTCGAA	2 cut(s)	550, 688
BstC8I	GCNNGC	2 cut(s)	520, 524
BstDEI	CTNAG	2 cut(s)	160, 627
BstDSI	CCRYGG	2 cut(s)	190, 665
BstF5I	GGATG	1 cut(s)	331
BstH2I	RGCGCY	1 cut(s)	576
BstHHI	GCGC	1 cut(s)	575
BstKTI	GATC	4 cut(s)	62, 344, 390, 465
BstMAI	GTCTC	1 cut(s)	414
BstMBI	GATC	4 cut(s)	59, 341, 387, 462
BstMWI	GCNNNNNNNGC	1 cut(s)	47
BstNI	CCWGG	1 cut(s)	707
BstNSI	RCATGY	1 cut(s)	526
BstSCI	CCNGG	1 cut(s)	705
BstV1I	GCAGC	1 cut(s)	710
BstX2I	RGATCY	3 cut(s)	59, 341, 387
BstYI	RGATCY	3 cut(s)	59, 341, 387
BstZ17I	GTATAC	1 cut(s)	258
BtgI	CCRYGG	2 cut(s)	190, 665
BtrI	CACGTC	1 cut(s)	673
BtsCI	GGATG	1 cut(s)	331
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	3 cut(s)	126, 453, 481
Cac8I	GCNNGC	2 cut(s)	520, 524
CciI	TCATGA	1 cut(s)	93
CfoI	GCGC	1 cut(s)	575
CviAII	CATG	7 cut(s)	94, 191, 298, 354, 431, 523, 666
CviJI	RGCY	9 cut(s)	104, 149, 159, 334, 398, 488, 502, 680, 701
CviKI_1	RGCY	9 cut(s)	104, 149, 159, 334, 398, 488, 502, 680, 701
DdeI	CTNAG	2 cut(s)	160, 627
DpnI	GATC	4 cut(s)	61, 343, 389, 464
DpnII	GATC	4 cut(s)	59, 341, 387, 462
Eam1104I	CTCTTC	1 cut(s)	435
EarI	CTCTTC	1 cut(s)	435
EciI	GGCGGA	1 cut(s)	83
Eco130I	CCWWGG	2 cut(s)	190, 665
EcoRII	CCWGG	1 cut(s)	705
EcoT14I	CCWWGG	2 cut(s)	190, 665
ErhI	CCWWGG	2 cut(s)	190, 665
FaeI	CATG	7 cut(s)	97, 194, 301, 357, 434, 526, 669
FatI	CATG	7 cut(s)	93, 190, 297, 353, 430, 522, 665
FbaI	TGATCA	1 cut(s)	462
FblI	GTMKAC	1 cut(s)	257
Fnu4HI	GCNGC	2 cut(s)	66, 699
FokI	GGATG	1 cut(s)	338
Fsp4HI	GCNGC	2 cut(s)	66, 699
FspBI	CTAG	1 cut(s)	248
GlaI	GCGC	1 cut(s)	574
GluI	GCNGC	2 cut(s)	66, 699
GsuI	CTGGAG	2 cut(s)	126, 261
HaeII	RGCGCY	1 cut(s)	576
HapII	CCGG	1 cut(s)	391
HhaI	GCGC	1 cut(s)	575
Hin1II	CATG	7 cut(s)	97, 194, 301, 357, 434, 526, 669
Hin6I	GCGC	1 cut(s)	573
HinP1I	GCGC	1 cut(s)	573
HindIII	AAGCTT	1 cut(s)	147
HinfI	GANTC	1 cut(s)	623
HpaII	CCGG	1 cut(s)	391
HphI	GGTGA	1 cut(s)	572
Hpy166II	GTNNAC	1 cut(s)	258
Hpy188I	TCNGA	1 cut(s)	230
Hpy188III	TCNNGA	5 cut(s)	94, 116, 248, 391, 620
Hpy8I	GTNNAC	1 cut(s)	258
Hpy99I	CGWCG	1 cut(s)	677
HpyAV	CCTTC	3 cut(s)	93, 388, 557
HpyCH4III	ACNGT	3 cut(s)	130, 476, 566
HpyCH4IV	ACGT	1 cut(s)	672
HpyCH4V	TGCA	5 cut(s)	22, 41, 221, 236, 494
HpyF10VI	GCNNNNNNNGC	1 cut(s)	47
HpyF3I	CTNAG	2 cut(s)	160, 627
HpySE526I	ACGT	1 cut(s)	672
Hsp92II	CATG	7 cut(s)	97, 194, 301, 357, 434, 526, 669
HspAI	GCGC	1 cut(s)	573
Kpn2I	TCCGGA	1 cut(s)	390
Ksp22I	TGATCA	1 cut(s)	462
Kzo9I	GATC	4 cut(s)	59, 341, 387, 462
LpnPI	CCDG	9 cut(s)	90, 129, 225, 384, 404, 504, 680, 692, 719
Lsp1109I	GCAGC	1 cut(s)	710
LweI	GCATC	1 cut(s)	324
MaeI	CTAG	1 cut(s)	248
MaeII	ACGT	1 cut(s)	672
MaeIII	GTNAC	2 cut(s)	560, 566
MalI	GATC	4 cut(s)	61, 343, 389, 464
MboI	GATC	4 cut(s)	59, 341, 387, 462
MboII	GAAGA	3 cut(s)	383, 452, 467
MfeI	CAATTG	1 cut(s)	205
MflI	RGATCY	3 cut(s)	59, 341, 387
MmeI	TCCRAC	1 cut(s)	348
MnlI	CCTC	3 cut(s)	64, 295, 436
MroI	TCCGGA	1 cut(s)	390
MroXI	GAANNNNTTC	1 cut(s)	423
MseI	TTAA	5 cut(s)	32, 87, 197, 288, 513
MslI	CAYNNNNRTG	2 cut(s)	131, 320
MspA1I	CMGCKG	1 cut(s)	701
MspCI	CTTAAG	1 cut(s)	287
MspI	CCGG	1 cut(s)	391
MspR9I	CCNGG	1 cut(s)	707
MunI	CAATTG	1 cut(s)	205
MvaI	CCWGG	1 cut(s)	707
MwoI	GCNNNNNNNGC	1 cut(s)	47
NcoI	CCATGG	2 cut(s)	190, 665
NdeII	GATC	4 cut(s)	59, 341, 387, 462
NlaIII	CATG	7 cut(s)	97, 194, 301, 357, 434, 526, 669
NlaIV	GGNNCC	1 cut(s)	635
NmuCI	GTSAC	2 cut(s)	560, 566
NspI	RCATGY	1 cut(s)	526
NspV	TTCGAA	2 cut(s)	550, 688
OliI	CACNNNNGTG	1 cut(s)	131
PaeI	GCATGC	1 cut(s)	526
PagI	TCATGA	1 cut(s)	93
PdmI	GAANNNNTTC	1 cut(s)	423
PfeI	GAWTC	1 cut(s)	623
PkrI	GCNGC	2 cut(s)	67, 700
PshBI	ATTAAT	1 cut(s)	513
Psp6I	CCWGG	1 cut(s)	705
PspGI	CCWGG	1 cut(s)	705
PspN4I	GGNNCC	1 cut(s)	635
PsuI	RGATCY	3 cut(s)	59, 341, 387
PvuII	CAGCTG	1 cut(s)	701
RseI	CAYNNNNRTG	2 cut(s)	131, 320
SaqAI	TTAA	5 cut(s)	32, 87, 197, 288, 513
SatI	GCNGC	2 cut(s)	66, 699
Sau3AI	GATC	4 cut(s)	59, 341, 387, 462
ScrFI	CCNGG	1 cut(s)	707
SetI	ASST	9 cut(s)	151, 161, 166, 294, 306, 336, 549, 675, 703
SfaNI	GCATC	1 cut(s)	324
SfuI	TTCGAA	2 cut(s)	550, 688
SmiMI	CAYNNNNRTG	2 cut(s)	131, 320
SmlI	CTYRAG	1 cut(s)	287
SmoI	CTYRAG	1 cut(s)	287
SphI	GCATGC	1 cut(s)	526
SsiI	CCGC	3 cut(s)	65, 68, 631
SspI	AATATT	1 cut(s)	685
SspMI	CTAG	1 cut(s)	248
StyD4I	CCNGG	1 cut(s)	705
StyI	CCWWGG	2 cut(s)	190, 665
TaaI	ACNGT	3 cut(s)	130, 476, 566
TaiI	ACGT	1 cut(s)	675
TaqI	TCGA	4 cut(s)	550, 619, 675, 688
TauI	GCSGC	1 cut(s)	68
TfiI	GAWTC	1 cut(s)	623
Tru1I	TTAA	5 cut(s)	32, 87, 197, 288, 513
Tru9I	TTAA	5 cut(s)	32, 87, 197, 288, 513
TscAI	CASTG	3 cut(s)	133, 453, 481
TseFI	GTSAC	2 cut(s)	560, 566
TseI	GCWGC	1 cut(s)	698
Tsp45I	GTSAC	2 cut(s)	560, 566
TspDTI	ATGAA	2 cut(s)	286, 574
TspRI	CASTG	3 cut(s)	133, 453, 481
Vha464I	CTTAAG	1 cut(s)	287
VspI	ATTAAT	1 cut(s)	513
XapI	RAATTY	3 cut(s)	28, 419, 552
XbaI	TCTAGA	1 cut(s)	247
XceI	RCATGY	1 cut(s)	526
XmiI	GTMKAC	1 cut(s)	257
XmnI	GAANNNNTTC	1 cut(s)	423
XspI	CTAG	1 cut(s)	248

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