Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0006606

Physical Location & Seq

Genomic Coordinates Forward (+)

57764136 .. 57766765

Gene Structure 2630 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000004257

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGGCCGAGATAGAGCCGGCGAACTTCGTAGACCAATCAGTCGTTCCGGGAGATGTGGTTCTTGACCTAACAAAAATGGCGAACCAGACCATCAAACTGGGCGGCGGCCTCCGGCAGGACTGCGATGCAATAGCTGCGATGAAGGCCGGAACATTGAGGTTCTCAAGGCCCAACAAGTACTGGGTCGAAACGTCCCAGAAACGGTATGTGCCTTGTGTGGAGGATTCTGTTCTTGGAATCGTGGTGGACTCTAAAGCAGATAATTTTCTGGTGGACATTAAAGGGCCTTCGCTGGCGTTTTTGCCCGTGCTTGCTTTTGAAGGAGGAACCAGGAGAAACATACCAAAGTTTGAGGTAGGTACATTGCTTTATGTTCGGGTTGTGAAGGCAAACCCTGGTATGAACCCTGAGTTGTCATGCACTGATGCCGGTGGAAAAGCAGCAGAGTATGGTCCCCTTAAAGATGGCTACATGTTTGAAGGTTCAACTGGCCTTTCAAGAATGCTGCTGAGTTCACCAACATGTCCAGTTCTTGCAGCACTTGGGAGGAACATCTCCTTTGAAATAGCAGTTGGTTTAAATGGCCGTGTTTGGGTGAACGCTACTGAAGCAGATAAGGTGATCATAGTTGCTAATGCAATTATGAACTCGGAGTCCCTTAGTGGGGTACAGCAGATTGGTATGGTGGATAAACTTTTGAAGAAGATCAATGACTTAGCAACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

KH_6

Protein Analysis

242

Amino Acids

25.81

Weight (kDa)

5.66

Isoelectric Point (pI)

40.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rrp40_N	PF18311	31 - 68	2.6e-07	Exosome complex exonuclease Rrp40 N-terminal domain
RRP40_S1	PF21262	69 - 151	4.1e-27	Exosome complex component RRP40, S1 domain
KH_6	PF15985	156 - 204	2.9e-14	KH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006606)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G25355 AT2G25355 AT4G32175
fragaria_vesca	FvH4_5g05270 FvH4_5g05270 FvH4_5g05270 FvH4_5g05270 FvH4_5g05270
malus_domestica	MD06G1174300.v1.1 MD06G1174500.v1.1
prunus_persica	Prupe.5G174300_v2.0.a1
pyrus_communis	pycom06g15560
rosa_chinensis	RchiOBHm_Chr7g0193601
rosa_laevigata	RLG00000004257
rosa_multiflora	Rmu_co8153970.1_g000001 Rmu_ssc0000035.1_g000008
rosa_roxburghii	Rroxscaffold_3G00261970
rosa_rugosa	Rorug07G0010700 Rorug07G0010800 Rorug07G0010900 Rorug07G0010900
rosa_samantha	Rh7AG137500 Rh7BG137700 Rh7CG141300 Rh7DG138900
rosa_wichuraiana	Rw7G011710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	38
AccI	GTMKAC	1 cut(s)	30
AciI	CCGC	2 cut(s)	102, 105
AcoI	YGGCCR	2 cut(s)	3, 583
AcuI	CTGAAG	1 cut(s)	627
AfaI	GTAC	3 cut(s)	179, 361, 669
AfiI	CCNNNNNNNGG	5 cut(s)	115, 201, 592, 663, 664
AflIII	ACRYGT	2 cut(s)	471, 521
AgsI	TTSAA	6 cut(s)	320, 479, 486, 498, 563, 700
AjnI	CCWGG	2 cut(s)	329, 394
AjuI	GAANNNNNNNTTGG	4 cut(s)	27, 59, 555, 587
AloI	GAACNNNNNNTCC	4 cut(s)	42, 74, 638, 670
AluBI	AGCT	1 cut(s)	134
AluI	AGCT	1 cut(s)	134
AoxI	GGCC	7 cut(s)	3, 106, 144, 167, 284, 490, 583
ApeKI	GCWGC	4 cut(s)	134, 440, 505, 536
AspS9I	GGNCC	3 cut(s)	168, 284, 452
AsuC2I	CCSGG	1 cut(s)	48
AsuHPI	GGTGA	3 cut(s)	507, 607, 631
AvaII	GGWCC	1 cut(s)	452
BbvI	GCAGC	4 cut(s)	121, 452, 492, 548
BccI	CCATC	2 cut(s)	98, 458
BceAI	ACGGC	1 cut(s)	570
BciT130I	CCWGG	2 cut(s)	331, 396
BclI	TGATCA	1 cut(s)	621
BcnI	CCSGG	1 cut(s)	48
BisI	GCNGC	6 cut(s)	103, 106, 135, 441, 506, 537
BlsI	GCNGC	6 cut(s)	104, 107, 136, 442, 507, 538
BmcAI	AGTACT	1 cut(s)	179
Bme1390I	CCNGG	3 cut(s)	48, 331, 396
Bme18I	GGWCC	1 cut(s)	452
BmgT120I	GGNCC	3 cut(s)	168, 284, 452
BmiI	GGNNCC	2 cut(s)	328, 454
BmrFI	CCNGG	3 cut(s)	48, 331, 396
BmrI	ACTGGG	2 cut(s)	107, 190
BmsI	GCATC	2 cut(s)	115, 415
BmuI	ACTGGG	2 cut(s)	107, 190
BpuEI	CTTGAG	1 cut(s)	148
BpuMI	CCSGG	1 cut(s)	48
BsaJI	CCNNGG	1 cut(s)	394
BsaXI	ACNNNNNCTCC	2 cut(s)	42, 72
Bsc4I	CCNNNNNNNGG	5 cut(s)	115, 201, 592, 663, 664
Bse118I	RCCGGY	2 cut(s)	16, 428
Bse1I	ACTGG	4 cut(s)	102, 185, 493, 527
Bse3DI	GCAATG	1 cut(s)	362
BseBI	CCWGG	2 cut(s)	331, 396
BseDI	CCNNGG	1 cut(s)	394
BseLI	CCNNNNNNNGG	5 cut(s)	115, 201, 592, 663, 664
BseMI	GCAATG	1 cut(s)	362
BseMII	CTCAG	2 cut(s)	399, 500
BseNI	ACTGG	4 cut(s)	102, 185, 493, 527
BseXI	GCAGC	4 cut(s)	121, 452, 492, 548
BshFI	GGCC	7 cut(s)	5, 108, 146, 169, 286, 492, 585
BsiSI	CCGG	5 cut(s)	17, 47, 112, 147, 429
BslFI	GGGAC	3 cut(s)	178, 438, 640
BslI	CCNNNNNNNGG	5 cut(s)	115, 201, 592, 663, 664
BsmFI	GGGAC	3 cut(s)	178, 438, 640
BsmI	GAATGC	1 cut(s)	507
BsnI	GGCC	7 cut(s)	5, 108, 146, 169, 286, 492, 585
Bsp143I	GATC	2 cut(s)	621, 705
BspACI	CCGC	2 cut(s)	102, 105
BspANI	GGCC	7 cut(s)	5, 108, 146, 169, 286, 492, 585
BspCNI	CTCAG	2 cut(s)	400, 501
BspLI	GGNNCC	2 cut(s)	328, 454
BsrDI	GCAATG	1 cut(s)	362
BsrFI	RCCGGY	2 cut(s)	16, 428
BsrI	ACTGG	4 cut(s)	102, 185, 493, 527
BssAI	RCCGGY	2 cut(s)	16, 428
BssECI	CCNNGG	1 cut(s)	394
BssMI	GATC	2 cut(s)	621, 705
Bst2UI	CCWGG	2 cut(s)	331, 396
Bst4CI	ACNGT	1 cut(s)	204
BstAPI	GCANNNNNTGC	1 cut(s)	134
BstC8I	GCNNGC	3 cut(s)	18, 294, 312
BstDEI	CTNAG	4 cut(s)	408, 509, 659, 715
BstENI	CCTNNNNNAGG	1 cut(s)	113
BstKTI	GATC	2 cut(s)	624, 708
BstMBI	GATC	2 cut(s)	621, 705
BstMWI	GCNNNNNNNGC	3 cut(s)	134, 143, 608
BstNI	CCWGG	2 cut(s)	331, 396
BstNSI	RCATGY	2 cut(s)	475, 525
BstSCI	CCNGG	3 cut(s)	46, 329, 394
BstV1I	GCAGC	4 cut(s)	121, 452, 492, 548
BstXI	CCANNNNNNTGG	1 cut(s)	97
BsuRI	GGCC	7 cut(s)	5, 108, 146, 169, 286, 492, 585
BtgZI	GCGATG	2 cut(s)	138, 152
BtsIMutI	CAGTG	1 cut(s)	420
Cac8I	GCNNGC	3 cut(s)	18, 294, 312
Cfr10I	RCCGGY	2 cut(s)	16, 428
Cfr13I	GGNCC	3 cut(s)	168, 284, 452
Csp6I	GTAC	3 cut(s)	178, 360, 668
CviAII	CATG	4 cut(s)	417, 472, 522, 723
CviQI	GTAC	3 cut(s)	178, 360, 668
DdeI	CTNAG	4 cut(s)	408, 509, 659, 715
DpnI	GATC	2 cut(s)	623, 707
DpnII	GATC	2 cut(s)	621, 705
DraI	TTTAAA	1 cut(s)	579
DrdI	GACNNNNNNGTC	1 cut(s)	38
DseDI	GACNNNNNNGTC	1 cut(s)	38
EaeI	YGGCCR	2 cut(s)	3, 583
Eco47I	GGWCC	1 cut(s)	452
Eco57I	CTGAAG	1 cut(s)	627
EcoNI	CCTNNNNNAGG	1 cut(s)	113
EcoO109I	RGGNCCY	1 cut(s)	284
EcoRII	CCWGG	2 cut(s)	329, 394
FaeI	CATG	4 cut(s)	420, 475, 525, 726
FaqI	GGGAC	3 cut(s)	178, 438, 640
FatI	CATG	4 cut(s)	416, 471, 521, 722
FbaI	TGATCA	1 cut(s)	621
FblI	GTMKAC	1 cut(s)	30
Fnu4HI	GCNGC	6 cut(s)	103, 106, 135, 441, 506, 537
Fsp4HI	GCNGC	6 cut(s)	103, 106, 135, 441, 506, 537
GluI	GCNGC	6 cut(s)	103, 106, 135, 441, 506, 537
HaeIII	GGCC	7 cut(s)	5, 108, 146, 169, 286, 492, 585
HapII	CCGG	5 cut(s)	17, 47, 112, 147, 429
Hin1II	CATG	4 cut(s)	420, 475, 525, 726
HinfI	GANTC	4 cut(s)	224, 237, 248, 653
HpaII	CCGG	5 cut(s)	17, 47, 112, 147, 429
HphI	GGTGA	3 cut(s)	507, 607, 631
Hpy166II	GTNNAC	5 cut(s)	31, 247, 274, 515, 598
Hpy188I	TCNGA	1 cut(s)	652
Hpy188III	TCNNGA	2 cut(s)	62, 498
Hpy8I	GTNNAC	5 cut(s)	31, 247, 274, 515, 598
HpyAV	CCTTC	5 cut(s)	136, 297, 314, 379, 473
HpyCH4III	ACNGT	1 cut(s)	204
HpyCH4IV	ACGT	1 cut(s)	191
HpyCH4V	TGCA	4 cut(s)	128, 420, 536, 638
HpyF10VI	GCNNNNNNNGC	3 cut(s)	134, 143, 608
HpyF3I	CTNAG	4 cut(s)	408, 509, 659, 715
HpySE526I	ACGT	1 cut(s)	191
Hsp92II	CATG	4 cut(s)	420, 475, 525, 726
KroI	GCCGGC	1 cut(s)	16
KroNI	GCCGGC	1 cut(s)	18
Ksp22I	TGATCA	1 cut(s)	621
Kzo9I	GATC	2 cut(s)	621, 705
Lsp1109I	GCAGC	4 cut(s)	121, 452, 492, 548
LweI	GCATC	2 cut(s)	115, 415
MaeII	ACGT	1 cut(s)	191
MalI	GATC	2 cut(s)	623, 707
MboI	GATC	2 cut(s)	621, 705
MboII	GAAGA	2 cut(s)	712, 715
MluCI	AATT	2 cut(s)	262, 639
MlyI	GAGTC	2 cut(s)	242, 662
MnlI	CCTC	6 cut(s)	119, 150, 214, 317, 346, 540
MroNI	GCCGGC	1 cut(s)	16
MseI	TTAA	3 cut(s)	279, 459, 578
MslI	CAYNNNNRTG	1 cut(s)	520
MspI	CCGG	5 cut(s)	17, 47, 112, 147, 429
MspR9I	CCNGG	3 cut(s)	48, 331, 396
Mva1269I	GAATGC	1 cut(s)	507
MvaI	CCWGG	2 cut(s)	331, 396
MwoI	GCNNNNNNNGC	3 cut(s)	134, 143, 608
NaeI	GCCGGC	1 cut(s)	18
NciI	CCSGG	1 cut(s)	48
NdeII	GATC	2 cut(s)	621, 705
NgoMIV	GCCGGC	1 cut(s)	16
NlaIII	CATG	4 cut(s)	420, 475, 525, 726
NlaIV	GGNNCC	2 cut(s)	328, 454
NmeAIII	GCCGAG	1 cut(s)	31
NspI	RCATGY	2 cut(s)	475, 525
PciI	ACATGT	2 cut(s)	471, 521
PctI	GAATGC	1 cut(s)	507
PdiI	GCCGGC	1 cut(s)	18
PfeI	GAWTC	2 cut(s)	224, 237
PfoI	TCCNGGA	1 cut(s)	46
PkrI	GCNGC	6 cut(s)	104, 107, 136, 442, 507, 538
PleI	GAGTC	2 cut(s)	242, 661
PpsI	GAGTC	2 cut(s)	242, 661
PscI	ACATGT	2 cut(s)	471, 521
Psp6I	CCWGG	2 cut(s)	329, 394
PspGI	CCWGG	2 cut(s)	329, 394
PspN4I	GGNNCC	2 cut(s)	328, 454
PspPI	GGNCC	3 cut(s)	168, 284, 452
RsaI	GTAC	3 cut(s)	179, 361, 669
RsaNI	GTAC	3 cut(s)	178, 360, 668
RseI	CAYNNNNRTG	1 cut(s)	520
SaqAI	TTAA	3 cut(s)	279, 459, 578
SatI	GCNGC	6 cut(s)	103, 106, 135, 441, 506, 537
Sau3AI	GATC	2 cut(s)	621, 705
Sau96I	GGNCC	3 cut(s)	168, 284, 452
ScaI	AGTACT	1 cut(s)	179
SchI	GAGTC	2 cut(s)	242, 662
ScrFI	CCNGG	3 cut(s)	48, 331, 396
SetI	ASST	8 cut(s)	69, 136, 161, 194, 357, 361, 484, 621
SfaNI	GCATC	2 cut(s)	115, 415
SinI	GGWCC	1 cut(s)	452
SmiMI	CAYNNNNRTG	1 cut(s)	520
SmlI	CTYRAG	1 cut(s)	163
SmoI	CTYRAG	1 cut(s)	163
Sse9I	AATT	2 cut(s)	262, 639
SsiI	CCGC	2 cut(s)	102, 105
StyD4I	CCNGG	3 cut(s)	46, 329, 394
TaaI	ACNGT	1 cut(s)	204
TaiI	ACGT	1 cut(s)	194
TaqI	TCGA	1 cut(s)	186
TasI	AATT	2 cut(s)	262, 639
TatI	WGTACW	1 cut(s)	177
TauI	GCSGC	2 cut(s)	105, 108
TfiI	GAWTC	2 cut(s)	224, 237
Tru1I	TTAA	3 cut(s)	279, 459, 578
Tru9I	TTAA	3 cut(s)	279, 459, 578
TscAI	CASTG	1 cut(s)	427
TseI	GCWGC	4 cut(s)	134, 440, 505, 536
TspDTI	ATGAA	3 cut(s)	155, 416, 659
TspRI	CASTG	1 cut(s)	427
VpaK11BI	GGWCC	1 cut(s)	452
XagI	CCTNNNNNAGG	1 cut(s)	113
XceI	RCATGY	2 cut(s)	475, 525
XmiI	GTMKAC	1 cut(s)	30
ZrmI	AGTACT	1 cut(s)	179

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