Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0006416

Physical Location & Seq

Genomic Coordinates Reverse (-)

53300082 .. 53301794

Gene Structure 1713 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019539

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGAGTAATCTTCAATCAACCTGCCAATTCTTCACTCCACTTCCGAGAAAGGGTCAAGAATTCGAAGCTGTATCGGACACTGAACACCACCAAGCTTTCAAGAAACCCAGAGTCTCTAAGGTTGGGTCAGACTCAATGGTTATTGAGAGGAGATACAAGTGGTTGCATTACAAGACCCGACTGTGCAATAACTTCAAACGGGGTGGTTGCCATTATGGTGAGGCATGCCTCTATGCTCACGGCATTGAAGAAATCCGCAACACTTTGGGTAGTTCGGAGAATGAGAAGGGCATGTTGGGTAGGACTGAGTATGCTCATCACAGAACTTGTGATGAACTTCGACTGTGTAAGTTGTTCTTGAATGAGGGGAAATGCACATATGGAGAGAATTGCCGCTTTCGTCATGTGATTCCGAAAAGCATCAGAGATGAGTCGGTGATCATTTTGGCTAGTGGGTCTAAAGGGTCTCAAATTAGTGGCTCCGGGCAATTTGGGGGCAAGAGGTCTCTGGGTTTGGATGTTGACACTAATGGAGTGAGTGGAGGCAGGCATTTTAGGCAACAAAGCTCTGTTGCAGCTGGGAGAGGGATGCTGAGTAATACCTGCATGGCTAGTGGAAGCTTTGCTGATGGACATGCCGTGCTCAGGAAGCTCTGTGGCTACACTACCACGGAGACTAAACATTTAAAGACTTTTACTACTTCTAGGGAATTGCAAGTTACGGACGGCAACTTCAACTGGAATGAACTTGAGAAAATGAGTCGCATCTATGCTGATTGGATTGAAGAAATTCCTCTTGTACATAGGAAGATGGAGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04218 map04218

Pfam Domains

Protein Families

KH_1 W2 zf-CCCH zf-CCCH_2

Protein Analysis

274

Amino Acids

30.85

Weight (kDa)

9.06

Isoelectric Point (pI)

48.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	57 - 81	2.1e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	114 - 135	3.4e-07	CCCH-type zinc finger
zf_CCCH_4	PF18345	116 - 135	4.4e-07	Zinc finger 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: OG0006416)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g30290 FvH4_6g30290
malus_domestica	MD00G1136200.v1.1 MD17G1204700.v1.1 MD17G1205200.v1.1
prunus_persica	Prupe.3G080200_v2.0.a1 Prupe.3G080200_v2.0.a1 Prupe.3G080200_v2.0.a1 Prupe.3G080700_v2.0.a1 Prupe.3G080700_v2.0.a1 Prupe.3G083300_v2.0.a1
pyrus_communis	pycom04g02400 pycom04g02900 pycom08g16450 pycom17g20850 pycom17g20880 pycom17g20900
rosa_chinensis	RchiOBHm_Chr2g0136531
rosa_laevigata	RLG00000019539
rosa_multiflora	Rmu_sc0040875.1_g000001
rosa_roxburghii	Rroxscaffold_2G00108200
rosa_rugosa	Rorug02G0331700
rosa_samantha	Rh2AG382500 Rh2BG389100 Rh2CG368800 Rh2DG405800
rosa_wichuraiana	Rw2G031260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	29, 611
AciI	CCGC	2 cut(s)	256, 394
AcsI	RAATTY	2 cut(s)	59, 789
AfaI	GTAC	1 cut(s)	801
AfiI	CCNNNNNNNGG	2 cut(s)	50, 645
AgsI	TTSAA	7 cut(s)	14, 100, 196, 248, 361, 736, 785
AjuI	GAANNNNNNNTTGG	2 cut(s)	278, 310
AluBI	AGCT	6 cut(s)	68, 95, 567, 578, 621, 652
AluI	AGCT	6 cut(s)	68, 95, 567, 578, 621, 652
Alw21I	GWGCWC	1 cut(s)	645
Alw26I	GTCTC	4 cut(s)	118, 471, 510, 668
ApeKI	GCWGC	1 cut(s)	575
ApoI	RAATTY	2 cut(s)	59, 789
Asp700I	GAANNNNTTC	1 cut(s)	789
AsuC2I	CCSGG	1 cut(s)	484
AsuHPI	GGTGA	2 cut(s)	230, 448
AsuII	TTCGAA	1 cut(s)	63
Bbv12I	GWGCWC	1 cut(s)	645
BbvI	GCAGC	1 cut(s)	587
BccI	CCATC	2 cut(s)	623, 805
BceAI	ACGGC	3 cut(s)	256, 623, 742
BclI	TGATCA	1 cut(s)	438
BcnI	CCSGG	1 cut(s)	484
BcoDI	GTCTC	4 cut(s)	118, 471, 510, 668
BfaI	CTAG	3 cut(s)	450, 612, 705
BfuAI	ACCTGC	2 cut(s)	29, 611
BisI	GCNGC	2 cut(s)	394, 576
BlsI	GCNGC	2 cut(s)	395, 577
Bme1390I	CCNGG	1 cut(s)	484
BmiI	GGNNCC	1 cut(s)	481
BmrFI	CCNGG	1 cut(s)	484
BmsI	GCATC	3 cut(s)	429, 579, 774
Bpu10I	CCTNAGC	1 cut(s)	644
Bpu14I	TTCGAA	1 cut(s)	63
BpuEI	CTTGAG	1 cut(s)	770
BpuMI	CCSGG	1 cut(s)	484
BsaI	GGTCTC	2 cut(s)	471, 510
BsaJI	CCNNGG	1 cut(s)	669
Bsc4I	CCNNNNNNNGG	2 cut(s)	50, 645
Bse1I	ACTGG	1 cut(s)	743
BseDI	CCNNGG	1 cut(s)	669
BseGI	GGATG	2 cut(s)	523, 594
BseLI	CCNNNNNNNGG	2 cut(s)	50, 645
BseMII	CTCAG	3 cut(s)	297, 584, 658
BseNI	ACTGG	1 cut(s)	743
BseRI	GAGGAG	1 cut(s)	163
BseXI	GCAGC	1 cut(s)	587
BseYI	CCCAGC	1 cut(s)	578
BsiHKAI	GWGCWC	1 cut(s)	645
BsiSI	CCGG	1 cut(s)	483
BslI	CCNNNNNNNGG	2 cut(s)	50, 645
BsmAI	GTCTC	4 cut(s)	118, 471, 510, 668
Bso31I	GGTCTC	2 cut(s)	471, 510
Bsp119I	TTCGAA	1 cut(s)	63
Bsp1286I	GDGCHC	1 cut(s)	645
Bsp1407I	TGTACA	1 cut(s)	799
Bsp143I	GATC	1 cut(s)	438
BspACI	CCGC	2 cut(s)	256, 394
BspCNI	CTCAG	3 cut(s)	298, 585, 657
BspLI	GGNNCC	1 cut(s)	481
BspMI	ACCTGC	2 cut(s)	29, 611
BspT104I	TTCGAA	1 cut(s)	63
BspTNI	GGTCTC	2 cut(s)	471, 510
BsrGI	TGTACA	1 cut(s)	799
BsrI	ACTGG	1 cut(s)	743
BssECI	CCNNGG	1 cut(s)	669
BssMI	GATC	1 cut(s)	438
Bst4CI	ACNGT	2 cut(s)	183, 345
BstAUI	TGTACA	1 cut(s)	799
BstBI	TTCGAA	1 cut(s)	63
BstC8I	GCNNGC	2 cut(s)	226, 548
BstDEI	CTNAG	4 cut(s)	117, 306, 593, 644
BstDSI	CCRYGG	1 cut(s)	669
BstF5I	GGATG	2 cut(s)	523, 594
BstKTI	GATC	1 cut(s)	441
BstMAI	GTCTC	4 cut(s)	118, 471, 510, 668
BstMBI	GATC	1 cut(s)	438
BstMWI	GCNNNNNNNGC	2 cut(s)	556, 649
BstNSI	RCATGY	3 cut(s)	228, 295, 638
BstSCI	CCNGG	1 cut(s)	482
BstV1I	GCAGC	1 cut(s)	587
BtgI	CCRYGG	1 cut(s)	669
BtsCI	GGATG	2 cut(s)	523, 594
BtsIMutI	CAGTG	1 cut(s)	78
BveI	ACCTGC	2 cut(s)	29, 611
Cac8I	GCNNGC	2 cut(s)	226, 548
Csp6I	GTAC	1 cut(s)	800
CspCI	CAANNNNNGTGG	2 cut(s)	184, 219
CviAII	CATG	5 cut(s)	225, 292, 404, 607, 635
CviQI	GTAC	1 cut(s)	800
DdeI	CTNAG	4 cut(s)	117, 306, 593, 644
DpnI	GATC	1 cut(s)	440
DpnII	GATC	1 cut(s)	438
DraI	TTTAAA	1 cut(s)	687
Eco31I	GGTCTC	2 cut(s)	471, 510
EcoRI	GAATTC	1 cut(s)	59
FaeI	CATG	5 cut(s)	228, 295, 407, 610, 638
FalI	AAGNNNNNCTT	2 cut(s)	341, 373
FatI	CATG	5 cut(s)	224, 291, 403, 606, 634
FauNDI	CATATG	1 cut(s)	379
FbaI	TGATCA	1 cut(s)	438
Fnu4HI	GCNGC	2 cut(s)	394, 576
FokI	GGATG	2 cut(s)	530, 601
Fsp4HI	GCNGC	2 cut(s)	394, 576
FspBI	CTAG	3 cut(s)	450, 612, 705
GluI	GCNGC	2 cut(s)	394, 576
GsaI	CCCAGC	1 cut(s)	582
HapII	CCGG	1 cut(s)	483
Hin1II	CATG	5 cut(s)	228, 295, 407, 610, 638
HincII	GTYRAC	1 cut(s)	523
HindII	GTYRAC	1 cut(s)	523
HindIII	AAGCTT	2 cut(s)	93, 619
HinfI	GANTC	5 cut(s)	111, 131, 409, 431, 760
HpaII	CCGG	1 cut(s)	483
HphI	GGTGA	2 cut(s)	230, 448
Hpy166II	GTNNAC	1 cut(s)	523
Hpy188I	TCNGA	7 cut(s)	45, 76, 130, 277, 414, 425, 821
Hpy188III	TCNNGA	4 cut(s)	56, 100, 358, 646
Hpy8I	GTNNAC	1 cut(s)	523
HpyAV	CCTTC	1 cut(s)	280
HpyCH4III	ACNGT	2 cut(s)	183, 345
HpyCH4V	TGCA	6 cut(s)	166, 186, 375, 575, 606, 715
HpyF10VI	GCNNNNNNNGC	2 cut(s)	556, 649
HpyF3I	CTNAG	4 cut(s)	117, 306, 593, 644
Hsp92II	CATG	5 cut(s)	228, 295, 407, 610, 638
Ksp22I	TGATCA	1 cut(s)	438
Kzo9I	GATC	1 cut(s)	438
LmnI	GCTCC	1 cut(s)	485
LpnPI	CCDG	9 cut(s)	34, 121, 494, 496, 532, 564, 616, 631, 724
Lsp1109I	GCAGC	1 cut(s)	587
LweI	GCATC	3 cut(s)	429, 579, 774
MaeI	CTAG	3 cut(s)	450, 612, 705
MaeIII	GTNAC	1 cut(s)	718
MalI	GATC	1 cut(s)	440
MboI	GATC	1 cut(s)	438
MboII	GAAGA	4 cut(s)	22, 260, 797, 820
MhlI	GDGCHC	1 cut(s)	645
MluCI	AATT	7 cut(s)	26, 59, 388, 471, 488, 710, 789
MlyI	GAGTC	4 cut(s)	120, 125, 440, 769
MnlI	CCTC	8 cut(s)	141, 214, 239, 358, 495, 536, 578, 804
MroXI	GAANNNNTTC	1 cut(s)	789
MseI	TTAA	1 cut(s)	686
MslI	CAYNNNNRTG	1 cut(s)	216
MspA1I	CMGCKG	1 cut(s)	578
MspI	CCGG	1 cut(s)	483
MspR9I	CCNGG	1 cut(s)	484
MwoI	GCNNNNNNNGC	2 cut(s)	556, 649
NciI	CCSGG	1 cut(s)	484
NdeI	CATATG	1 cut(s)	379
NdeII	GATC	1 cut(s)	438
NlaIII	CATG	5 cut(s)	228, 295, 407, 610, 638
NlaIV	GGNNCC	1 cut(s)	481
NspI	RCATGY	3 cut(s)	228, 295, 638
NspV	TTCGAA	1 cut(s)	63
PaeI	GCATGC	1 cut(s)	228
PdmI	GAANNNNTTC	1 cut(s)	789
PfeI	GAWTC	1 cut(s)	409
PkrI	GCNGC	2 cut(s)	395, 577
PleI	GAGTC	4 cut(s)	119, 125, 439, 768
PpsI	GAGTC	4 cut(s)	119, 125, 439, 768
PspFI	CCCAGC	1 cut(s)	578
PspN4I	GGNNCC	1 cut(s)	481
PvuII	CAGCTG	1 cut(s)	578
RsaI	GTAC	1 cut(s)	801
RsaNI	GTAC	1 cut(s)	800
RseI	CAYNNNNRTG	1 cut(s)	216
SaqAI	TTAA	1 cut(s)	686
SatI	GCNGC	2 cut(s)	394, 576
Sau3AI	GATC	1 cut(s)	438
SchI	GAGTC	4 cut(s)	120, 125, 440, 769
ScrFI	CCNGG	1 cut(s)	484
SduI	GDGCHC	1 cut(s)	645
SfaNI	GCATC	3 cut(s)	429, 579, 774
SfuI	TTCGAA	1 cut(s)	63
SmiMI	CAYNNNNRTG	1 cut(s)	216
SmlI	CTYRAG	1 cut(s)	749
SmoI	CTYRAG	1 cut(s)	749
SphI	GCATGC	1 cut(s)	228
Sse9I	AATT	7 cut(s)	26, 59, 388, 471, 488, 710, 789
SsiI	CCGC	2 cut(s)	256, 394
SspMI	CTAG	3 cut(s)	450, 612, 705
StyD4I	CCNGG	1 cut(s)	482
TaaI	ACNGT	2 cut(s)	183, 345
TaqI	TCGA	2 cut(s)	63, 340
TasI	AATT	7 cut(s)	26, 59, 388, 471, 488, 710, 789
TatI	WGTACW	1 cut(s)	799
TauI	GCSGC	1 cut(s)	396
TfiI	GAWTC	1 cut(s)	409
Tru1I	TTAA	1 cut(s)	686
Tru9I	TTAA	1 cut(s)	686
TscAI	CASTG	1 cut(s)	85
TseI	GCWGC	1 cut(s)	575
TspDTI	ATGAA	2 cut(s)	348, 759
TspGWI	ACGGA	2 cut(s)	686, 737
TspRI	CASTG	1 cut(s)	85
XapI	RAATTY	2 cut(s)	59, 789
XceI	RCATGY	3 cut(s)	228, 295, 638
XmnI	GAANNNNTTC	1 cut(s)	789
XspI	CTAG	3 cut(s)	450, 612, 705

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