Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000235

Physical Location & Seq

Genomic Coordinates Forward (+)

54491235 .. 54493038

Gene Structure 1804 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014539

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGGAGGGAGCATCCAAGGAGCCTACCTTCTTCAAGATAATCAAAACTGGGTTTAACACTGATGATCTGAGAATCCCCCCAAAGTTCCGGAGGCACATGCTAAATGAACTTTCTGAAACGGCAACTTTGGAGTTGAAGGGTTCTTCAAAATGTTCATGGACTGTTCAAGTGAGTCAAATAGAAAGCGATATATATTTGAAGAATGGATGGCAGAAGTTTATAAAAGATAACTCCTTGGGCGATTTTGAGTTTTTAGTATTTAGGTATGAGAGACCGATGCATTTTACTATAGAGATCTTTGACAAGACGGCATGCAAGAGAAACAATCTTCTGGAAAAATCCACTAGGGCTGACAACACTAAGAGGCCTCGGGGTAGACCAAGAAAGTGCAATCGTTCAGCTGCTGGTGAAAACATTCAAAGTTGCCAGTCCTTTGAACTGAAAGAGATCAAAGAAGAGGAAGAAGAGGAAGCTGCCACATTGCCCGGTTCTGGGTTCCGTTCTTTTACAAGTATTATGAGGAAACGCTGTTATAATGTGGCAGTTCCAGTGGACTTCAGTAGGGAGCATCTTCCTCAGGGCTACTACAGCATTGTGCTGAAAAATTCGAAGGGACAAAAATGGAAAGTGAAAGTTGTCTGTTCTGGTAAAACAGTTAAACTTTCTGCAGGGTGGGTGGAGTTTAGACGTGCTAATCAAATTAACTGCGGAGATATTTGCACATTTGATCTTGTGGGAAGAAGGGCCATGGTGGTTCACGTTATTCCAAAGTGA

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:0016553 GO:0016554 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

PPR

Protein Analysis

258

Amino Acids

29.59

Weight (kDa)

9.48

Isoelectric Point (pI)

47.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	10 - 102	1.5e-15	B3 DNA binding domain
B3	PF02362	179 - 255	1.9e-13	B3 DNA binding domain

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: OG0000235)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g22700 FvH4_2g06920 FvH4_2g06920 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06960 FvH4_2g06970 FvH4_2g06970 FvH4_2g07230 FvH4_2g07231 FvH4_2g07231 FvH4_2g07240 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07290 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_2g07300 FvH4_4g19990 FvH4_4g19990 FvH4_4g19990 FvH4_4g20070
malus_domestica	MD05G1072700.v1.1
prunus_persica	Prupe.8G113100_v2.0.a1
pyrus_communis	pycom05g06500 pycom10g06950
rosa_chinensis	RchiOBHm_Chr4g0425711 RchiOBHm_Chr6g0259241 RchiOBHm_Chr6g0259251 RchiOBHm_Chr6g0259321 RchiOBHm_Chr6g0259331 RchiOBHm_Chr6g0259781 RchiOBHm_Chr6g0259791 RchiOBHm_Chr6g0259811 RchiOBHm_Chr6g0259881 RchiOBHm_Chr6g0259931
rosa_laevigata	RLG00000007345 RLG00000014500 RLG00000014501 RLG00000014505 RLG00000014506 RLG00000014507 RLG00000014539 RLG00000014540 RLG00000014545 RLG00000014546
rosa_multiflora	Rmu_co8137334.1_g000001 Rmu_co8454279.1_g000001 Rmu_co8476373.1_g000001 Rmu_sc0001078.1_g000001 Rmu_sc0003958.1_g000011 Rmu_sc0009049.1_g000001 Rmu_sc0009049.1_g000009 Rmu_sc0010546.1_g000001 Rmu_sc0011974.1_g000002 Rmu_sc0011974.1_g000003 Rmu_sc0033846.1_g000001 Rmu_sc0036999.1_g000001 Rmu_ssc0000052.1_g000015
rosa_roxburghii	Rroxscaffold_5G00367690 Rroxscaffold_7G00206530 Rroxscaffold_7G00206540 Rroxscaffold_7G00206560 Rroxscaffold_7G00206570 Rroxscaffold_7G00207020 Rroxscaffold_7G00207030 Rroxscaffold_7G00207150 Rroxscaffold_7G00207160 Rroxscaffold_7G00207170 Rroxscaffold_7G00207270
rosa_rugosa	Rorug04G0205300 Rorug05G0586300 Rorug05G0586400 Rorug05G0586500 Rorug05G0586600 Rorug05G0586700 Rorug05G0587300 Rorug05G0587400 Rorug05G0587500 Rorug05G0587600 Rorug05G0590500 Rorug05G0590600 Rorug05G0591200 Rorug05G0591300 Rorug05G0591400 Rorug05G0591500
rosa_samantha	Rh4AG262200 Rh4BG268500 Rh4CG279700 Rh4DG264100 Rh6AG103100 Rh6AG103600 Rh6AG107100 Rh6AG107200 Rh6AG107700 Rh6BG095400 Rh6BG095500 Rh6BG095900 Rh6BG096000 Rh6BG096800 Rh6BG102600 Rh6BG102700 Rh6BG102800 Rh6BG103800 Rh6CG092300 Rh6CG092400 Rh6CG092800 Rh6CG092900 Rh6CG096200 Rh6CG096300 Rh6CG096800 Rh6CG097100 Rh6DG086300 Rh6DG086400 Rh6DG086700 Rh6DG086800 Rh6DG090000 Rh6DG090100 Rh6DG090500 Rh6DG090800
rosa_wichuraiana	Rw4G022670 Rw6G008900 Rw6G008940 Rw6G009250 Rw6G009280 Rw6G009330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	221, 534
AccI	GTMKAC	1 cut(s)	376
AccIII	TCCGGA	1 cut(s)	87
AciI	CCGC	1 cut(s)	708
AcsI	RAATTY	1 cut(s)	604
AcuI	CTGAAG	1 cut(s)	541
AfiI	CCNNNNNNNGG	2 cut(s)	491, 492
AgsI	TTSAA	7 cut(s)	34, 136, 147, 167, 199, 419, 437
AjiI	CACGTC	1 cut(s)	689
AluBI	AGCT	2 cut(s)	401, 473
AluI	AGCT	2 cut(s)	401, 473
Alw26I	GTCTC	1 cut(s)	265
AlwNI	CAGNNNCTG	1 cut(s)	404
Ama87I	CYCGRG	1 cut(s)	369
Aor13HI	TCCGGA	1 cut(s)	87
AoxI	GGCC	2 cut(s)	365, 744
ApeKI	GCWGC	2 cut(s)	401, 473
ApoI	RAATTY	1 cut(s)	604
Asp700I	GAANNNNTTC	1 cut(s)	414
AspS9I	GGNCC	1 cut(s)	744
AsuC2I	CCSGG	1 cut(s)	486
AsuHPI	GGTGA	1 cut(s)	419
AsuII	TTCGAA	1 cut(s)	608
AvaI	CYCGRG	1 cut(s)	369
AxyI	CCTNAGG	1 cut(s)	576
BbvI	GCAGC	2 cut(s)	388, 460
BccI	CCATC	1 cut(s)	201
BceAI	ACGGC	2 cut(s)	135, 324
BcnI	CCSGG	1 cut(s)	486
BcoDI	GTCTC	1 cut(s)	265
BfaI	CTAG	1 cut(s)	345
BfmI	CTRYAG	3 cut(s)	288, 586, 666
BglII	AGATCT	1 cut(s)	294
BisI	GCNGC	2 cut(s)	402, 474
BlsI	GCNGC	2 cut(s)	403, 475
Bme1390I	CCNGG	1 cut(s)	486
BmeT110I	CYCGRG	1 cut(s)	369
BmgBI	CACGTC	1 cut(s)	689
BmgT120I	GGNCC	1 cut(s)	744
BmiI	GGNNCC	2 cut(s)	21, 497
BmrFI	CCNGG	1 cut(s)	486
BmrI	ACTGGG	1 cut(s)	57
BmsI	GCATC	3 cut(s)	20, 267, 577
BmuI	ACTGGG	1 cut(s)	57
Bpu14I	TTCGAA	1 cut(s)	608
BpuMI	CCSGG	1 cut(s)	486
BsaI	GGTCTC	1 cut(s)	265
BsaJI	CCNNGG	4 cut(s)	15, 234, 368, 747
BsaWI	WCCGGW	1 cut(s)	87
Bsc4I	CCNNNNNNNGG	2 cut(s)	491, 492
Bse1I	ACTGG	3 cut(s)	52, 427, 548
Bse21I	CCTNAGG	1 cut(s)	576
Bse3DI	GCAATG	1 cut(s)	479
BseAI	TCCGGA	1 cut(s)	87
BseDI	CCNNGG	4 cut(s)	15, 234, 368, 747
BseGI	GGATG	2 cut(s)	11, 212
BseLI	CCNNNNNNNGG	2 cut(s)	491, 492
BseMI	GCAATG	1 cut(s)	479
BseMII	CTCAG	2 cut(s)	59, 590
BseNI	ACTGG	3 cut(s)	52, 427, 548
BseXI	GCAGC	2 cut(s)	388, 460
BshFI	GGCC	2 cut(s)	367, 746
BsiHKCI	CYCGRG	1 cut(s)	369
BsiSI	CCGG	2 cut(s)	88, 486
BslFI	GGGAC	1 cut(s)	627
BslI	CCNNNNNNNGG	2 cut(s)	491, 492
BsmAI	GTCTC	1 cut(s)	265
BsmFI	GGGAC	1 cut(s)	627
BsnI	GGCC	2 cut(s)	367, 746
Bso31I	GGTCTC	1 cut(s)	265
BsoBI	CYCGRG	1 cut(s)	369
Bsp119I	TTCGAA	1 cut(s)	608
Bsp13I	TCCGGA	1 cut(s)	87
Bsp143I	GATC	4 cut(s)	64, 294, 447, 727
Bsp19I	CCATGG	1 cut(s)	747
BspACI	CCGC	1 cut(s)	708
BspANI	GGCC	2 cut(s)	367, 746
BspCNI	CTCAG	2 cut(s)	60, 589
BspEI	TCCGGA	1 cut(s)	87
BspLI	GGNNCC	2 cut(s)	21, 497
BspMAI	CTGCAG	1 cut(s)	670
BspT104I	TTCGAA	1 cut(s)	608
BspTNI	GGTCTC	1 cut(s)	265
BsrDI	GCAATG	1 cut(s)	479
BsrI	ACTGG	3 cut(s)	52, 427, 548
BssECI	CCNNGG	4 cut(s)	15, 234, 368, 747
BssMI	GATC	4 cut(s)	64, 294, 447, 727
BssT1I	CCWWGG	3 cut(s)	15, 234, 747
Bst4CI	ACNGT	2 cut(s)	163, 655
Bst6I	CTCTTC	2 cut(s)	450, 459
BstBI	TTCGAA	1 cut(s)	608
BstC8I	GCNNGC	1 cut(s)	313
BstDEI	CTNAG	3 cut(s)	68, 360, 576
BstDSI	CCRYGG	1 cut(s)	747
BstF5I	GGATG	2 cut(s)	11, 212
BstKTI	GATC	4 cut(s)	67, 297, 450, 730
BstMAI	GTCTC	1 cut(s)	265
BstMBI	GATC	4 cut(s)	64, 294, 447, 727
BstMWI	GCNNNNNNNGC	1 cut(s)	588
BstNSI	RCATGY	2 cut(s)	100, 315
BstSCI	CCNGG	1 cut(s)	484
BstSFI	CTRYAG	3 cut(s)	288, 586, 666
BstV1I	GCAGC	2 cut(s)	388, 460
BstX2I	RGATCY	1 cut(s)	294
BstYI	RGATCY	1 cut(s)	294
Bsu36I	CCTNAGG	1 cut(s)	576
BsuRI	GGCC	2 cut(s)	367, 746
BtgI	CCRYGG	1 cut(s)	747
BtrI	CACGTC	1 cut(s)	689
BtsCI	GGATG	2 cut(s)	11, 212
BtsIMutI	CAGTG	2 cut(s)	57, 555
Cac8I	GCNNGC	1 cut(s)	313
CaiI	CAGNNNCTG	1 cut(s)	404
Cfr13I	GGNCC	1 cut(s)	744
CviAII	CATG	4 cut(s)	97, 156, 312, 748
CviJI	RGCY	7 cut(s)	22, 350, 367, 401, 473, 582, 746
CviKI_1	RGCY	7 cut(s)	22, 350, 367, 401, 473, 582, 746
DdeI	CTNAG	3 cut(s)	68, 360, 576
DpnI	GATC	4 cut(s)	66, 296, 449, 729
DpnII	GATC	4 cut(s)	64, 294, 447, 727
Eam1104I	CTCTTC	2 cut(s)	450, 459
EarI	CTCTTC	2 cut(s)	450, 459
Eco130I	CCWWGG	3 cut(s)	15, 234, 747
Eco147I	AGGCCT	1 cut(s)	367
Eco31I	GGTCTC	1 cut(s)	265
Eco57I	CTGAAG	1 cut(s)	541
Eco81I	CCTNAGG	1 cut(s)	576
Eco88I	CYCGRG	1 cut(s)	369
EcoT14I	CCWWGG	3 cut(s)	15, 234, 747
EcoT22I	ATGCAT	1 cut(s)	282
ErhI	CCWWGG	3 cut(s)	15, 234, 747
FaeI	CATG	4 cut(s)	100, 159, 315, 751
FaqI	GGGAC	1 cut(s)	627
FatI	CATG	4 cut(s)	96, 155, 311, 747
FblI	GTMKAC	1 cut(s)	376
Fnu4HI	GCNGC	2 cut(s)	402, 474
FokI	GGATG	1 cut(s)	219
Fsp4HI	GCNGC	2 cut(s)	402, 474
FspBI	CTAG	1 cut(s)	345
GluI	GCNGC	2 cut(s)	402, 474
HaeIII	GGCC	2 cut(s)	367, 746
HapII	CCGG	2 cut(s)	88, 486
Hin1II	CATG	4 cut(s)	100, 159, 315, 751
HinfI	GANTC	2 cut(s)	72, 172
HpaII	CCGG	2 cut(s)	88, 486
HphI	GGTGA	1 cut(s)	419
Hpy166II	GTNNAC	3 cut(s)	377, 553, 757
Hpy188I	TCNGA	2 cut(s)	69, 115
Hpy188III	TCNNGA	3 cut(s)	34, 88, 332
Hpy8I	GTNNAC	3 cut(s)	377, 553, 757
HpyAV	CCTTC	4 cut(s)	37, 130, 604, 735
HpyCH4III	ACNGT	2 cut(s)	163, 655
HpyCH4IV	ACGT	2 cut(s)	688, 759
HpyCH4V	TGCA	5 cut(s)	280, 315, 390, 668, 720
HpyF10VI	GCNNNNNNNGC	1 cut(s)	588
HpyF3I	CTNAG	3 cut(s)	68, 360, 576
HpySE526I	ACGT	2 cut(s)	688, 759
Hsp92II	CATG	4 cut(s)	100, 159, 315, 751
Kpn2I	TCCGGA	1 cut(s)	87
Kzo9I	GATC	4 cut(s)	64, 294, 447, 727
LmnI	GCTCC	3 cut(s)	8, 19, 565
Lsp1109I	GCAGC	2 cut(s)	388, 460
LweI	GCATC	3 cut(s)	20, 267, 577
MaeI	CTAG	1 cut(s)	345
MaeII	ACGT	2 cut(s)	688, 759
MalI	GATC	4 cut(s)	66, 296, 449, 729
MboI	GATC	4 cut(s)	64, 294, 447, 727
MboII	GAAGA	9 cut(s)	22, 135, 211, 320, 467, 473, 476, 563, 750
MflI	RGATCY	1 cut(s)	294
MluCI	AATT	2 cut(s)	604, 699
MlyI	GAGTC	1 cut(s)	181
MnlI	CCTC	7 cut(s)	84, 357, 378, 451, 460, 513, 585
Mph1103I	ATGCAT	1 cut(s)	282
MroI	TCCGGA	1 cut(s)	87
MroXI	GAANNNNTTC	1 cut(s)	414
MseI	TTAA	3 cut(s)	54, 657, 702
MspA1I	CMGCKG	1 cut(s)	401
MspI	CCGG	2 cut(s)	88, 486
MspR9I	CCNGG	1 cut(s)	486
MwoI	GCNNNNNNNGC	1 cut(s)	588
NciI	CCSGG	1 cut(s)	486
NcoI	CCATGG	1 cut(s)	747
NdeII	GATC	4 cut(s)	64, 294, 447, 727
NlaIII	CATG	4 cut(s)	100, 159, 315, 751
NlaIV	GGNNCC	2 cut(s)	21, 497
NsiI	ATGCAT	1 cut(s)	282
NspI	RCATGY	2 cut(s)	100, 315
NspV	TTCGAA	1 cut(s)	608
PaeI	GCATGC	1 cut(s)	315
PceI	AGGCCT	1 cut(s)	367
PdmI	GAANNNNTTC	1 cut(s)	414
PfeI	GAWTC	1 cut(s)	72
PkrI	GCNGC	2 cut(s)	403, 475
PleI	GAGTC	1 cut(s)	180
PpsI	GAGTC	1 cut(s)	180
PsiI	TTATAA	2 cut(s)	221, 534
PspN4I	GGNNCC	2 cut(s)	21, 497
PspPI	GGNCC	1 cut(s)	744
PstI	CTGCAG	1 cut(s)	670
PstNI	CAGNNNCTG	1 cut(s)	404
PsuI	RGATCY	1 cut(s)	294
PvuII	CAGCTG	1 cut(s)	401
SaqAI	TTAA	3 cut(s)	54, 657, 702
SatI	GCNGC	2 cut(s)	402, 474
Sau3AI	GATC	4 cut(s)	64, 294, 447, 727
Sau96I	GGNCC	1 cut(s)	744
SchI	GAGTC	1 cut(s)	181
ScrFI	CCNGG	1 cut(s)	486
SetI	ASST	6 cut(s)	29, 266, 403, 475, 691, 762
SfaNI	GCATC	3 cut(s)	20, 267, 577
SfcI	CTRYAG	3 cut(s)	288, 586, 666
SfuI	TTCGAA	1 cut(s)	608
SphI	GCATGC	1 cut(s)	315
Sse9I	AATT	2 cut(s)	604, 699
SseBI	AGGCCT	1 cut(s)	367
SsiI	CCGC	1 cut(s)	708
SspMI	CTAG	1 cut(s)	345
StuI	AGGCCT	1 cut(s)	367
StyD4I	CCNGG	1 cut(s)	484
StyI	CCWWGG	3 cut(s)	15, 234, 747
TaaI	ACNGT	2 cut(s)	163, 655
TaiI	ACGT	2 cut(s)	691, 762
TaqI	TCGA	1 cut(s)	608
TaqII	GACCGA	1 cut(s)	289
TasI	AATT	2 cut(s)	604, 699
TfiI	GAWTC	1 cut(s)	72
Tru1I	TTAA	3 cut(s)	54, 657, 702
Tru9I	TTAA	3 cut(s)	54, 657, 702
TscAI	CASTG	2 cut(s)	64, 555
TseI	GCWGC	2 cut(s)	401, 473
TspDTI	ATGAA	2 cut(s)	120, 144
TspGWI	ACGGA	1 cut(s)	488
TspRI	CASTG	2 cut(s)	64, 555
XapI	RAATTY	1 cut(s)	604
XceI	RCATGY	2 cut(s)	100, 315
XmiI	GTMKAC	1 cut(s)	376
XmnI	GAANNNNTTC	1 cut(s)	414
XspI	CTAG	1 cut(s)	345
Zsp2I	ATGCAT	1 cut(s)	282

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