Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0003344

Physical Location & Seq

Genomic Coordinates Forward (+)

60371825 .. 60374708

Gene Structure 2884 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009928

Sequence Viewer

CDS Protein Promoter (2k)

Length: 633 bp

ATGTTTTCTGAAGTGGAACTGGTTAGGGGTGTAGTTGTCCTTGCTGAAAAGCTAGACAAAGACAGTGCGGTTACTTCAAGATCCGTTATAACAACACAGCTTTTGGAGGACTTGTTAAGAGAGAAGGCCAGCAAGGATCATGGCTACTTCCTTAAAGTCACTGCCTTGAAGATGATAGGAAAAGGACAGATTTCAGACGACTCAAGAAAGATGTTGTTCCCTGTAGCTTTTAGCTGTCGCACGTTCATACCGTGCCAGGGGGAGATTTTGGAGGGAGTCGTTCGTCATGTGCATAACCTTGGGGTGATCATTAGATGTGGACCTCTTAACTATGCTTTTCTGTCAGCTCGAAAAATGCCAAATTACCACTATGTCGATGGGATGAATCCGTTCTTCTTGAGGGATGACCTTGCAAAGATAGACAAAGAAGTTGTGGTTCGGTTCAGGGTGCTTCATTCTAGATGGATAGAGAAGAGTAGAGAGATGAGGAAGGAGTTTGTGATGGTTGTTAGTATAGTTGGAGATTCACTCGGCCCTGTTTGTGGTCCTCATGAATCAGAGTTCTCCACCTGGTCAAGCCTTCGACTCTCTTCCGCTCTCTCTCAGGCTAAGCTTGCTTTTCTGAAAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000291 GO:0000428 GO:0000932 GO:0000956 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0003727 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006401 GO:0006402 GO:0006417 GO:0006446 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0016070 GO:0016071 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019439 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031329 GO:0031331 GO:0031369 GO:0031974 GO:0031981 GO:0032268 GO:0032270 GO:0032774 GO:0032991 GO:0034248 GO:0034250 GO:0034641 GO:0034645 GO:0034654 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045727 GO:0045935 GO:0045948 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0055029 GO:0060211 GO:0060213 GO:0060255 GO:0061013 GO:0061014 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:1900151 GO:1900153 GO:1901360 GO:1901361 GO:1901362 GO:1901363 GO:1901575 GO:1901576 GO:1902494 GO:1903311 GO:1903313 GO:1990234 GO:1990904 GO:2000112

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SHS2_Rpb7-N

Protein Analysis

211

Amino Acids

23.81

Weight (kDa)

9.32

Isoelectric Point (pI)

43.39

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

Style Settings

Font Size (px)

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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: OG0003344)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520 AT4G14520
fragaria_vesca	FvH4_4g02580 FvH4_4g02580
malus_domestica	MD13G1206600.v1.1 MD16G1207800.v1.1
prunus_persica	Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1 Prupe.1G030200_v2.0.a1
pyrus_communis	pycom13g17900 pycom16g17520
rosa_chinensis	RchiOBHm_Chr4g0390281
rosa_laevigata	RLG00000009928
rosa_multiflora	Rmu_sc0004432.1_g000010 Rmu_sc0014620.1_g000002
rosa_roxburghii	Rroxscaffold_5G00336400
rosa_rugosa	Rorug03G0329000
rosa_samantha	Rh4AG031400 Rh4BG025400 Rh4CG034600 Rh4DG026600
rosa_wichuraiana	Rw4G002500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	89
AccBSI	CCGCTC	1 cut(s)	596
AciI	CCGC	2 cut(s)	68, 594
AclWI	GGATC	2 cut(s)	75, 144
AcuI	CTGAAG	1 cut(s)	30
AfiI	CCNNNNNNNGG	2 cut(s)	257, 542
AgsI	TTSAA	2 cut(s)	78, 169
AjnI	CCWGG	2 cut(s)	255, 569
AluBI	AGCT	6 cut(s)	52, 100, 227, 234, 347, 613
AluI	AGCT	6 cut(s)	52, 100, 227, 234, 347, 613
AlwI	GGATC	2 cut(s)	75, 144
AoxI	GGCC	2 cut(s)	126, 532
Asp700I	GAANNNNTTC	1 cut(s)	389
AspS9I	GGNCC	3 cut(s)	320, 533, 545
AsuHPI	GGTGA	1 cut(s)	316
AvaII	GGWCC	2 cut(s)	320, 545
BccI	CCATC	3 cut(s)	371, 456, 496
BciT130I	CCWGG	2 cut(s)	257, 571
BclI	TGATCA	1 cut(s)	306
BfaI	CTAG	2 cut(s)	53, 459
BfmI	CTRYAG	1 cut(s)	222
BlpI	GCTNAGC	1 cut(s)	609
Bme1390I	CCNGG	2 cut(s)	257, 571
Bme18I	GGWCC	2 cut(s)	320, 545
BmgT120I	GGNCC	3 cut(s)	320, 533, 545
BmrFI	CCNGG	2 cut(s)	257, 571
BplI	GAGNNNNNCTC	2 cut(s)	513, 545
Bpu1102I	GCTNAGC	1 cut(s)	609
BpuEI	CTTGAG	2 cut(s)	187, 418
BsaJI	CCNNGG	2 cut(s)	256, 298
BsaXI	ACNNNNNCTCC	2 cut(s)	98, 128
Bsc4I	CCNNNNNNNGG	2 cut(s)	257, 542
Bse1I	ACTGG	1 cut(s)	24
BseBI	CCWGG	2 cut(s)	257, 571
BseDI	CCNNGG	2 cut(s)	256, 298
BseGI	GGATG	2 cut(s)	387, 409
BseLI	CCNNNNNNNGG	2 cut(s)	257, 542
BseMII	CTCAG	1 cut(s)	617
BseNI	ACTGG	1 cut(s)	24
BshFI	GGCC	2 cut(s)	128, 534
BslI	CCNNNNNNNGG	2 cut(s)	257, 542
BsnI	GGCC	2 cut(s)	128, 534
Bsp143I	GATC	3 cut(s)	80, 136, 306
Bsp1720I	GCTNAGC	1 cut(s)	609
BspACI	CCGC	2 cut(s)	68, 594
BspANI	GGCC	2 cut(s)	128, 534
BspCNI	CTCAG	1 cut(s)	616
BspHI	TCATGA	1 cut(s)	550
BspPI	GGATC	2 cut(s)	75, 144
BsrBI	CCGCTC	1 cut(s)	596
BsrI	ACTGG	1 cut(s)	24
BssECI	CCNNGG	2 cut(s)	256, 298
BssMI	GATC	3 cut(s)	80, 136, 306
BssT1I	CCWWGG	1 cut(s)	298
Bst2UI	CCWGG	2 cut(s)	257, 571
Bst4CI	ACNGT	2 cut(s)	65, 252
Bst6I	CTCTTC	2 cut(s)	467, 595
BstC8I	GCNNGC	2 cut(s)	130, 615
BstDEI	CTNAG	2 cut(s)	603, 609
BstF5I	GGATG	2 cut(s)	387, 409
BstKTI	GATC	3 cut(s)	83, 139, 309
BstMBI	GATC	3 cut(s)	80, 136, 306
BstMWI	GCNNNNNNNGC	1 cut(s)	614
BstNI	CCWGG	2 cut(s)	257, 571
BstSCI	CCNGG	2 cut(s)	255, 569
BstSFI	CTRYAG	1 cut(s)	222
BstX2I	RGATCY	1 cut(s)	80
BstYI	RGATCY	1 cut(s)	80
BsuRI	GGCC	2 cut(s)	128, 534
BtsCI	GGATG	2 cut(s)	387, 409
BtsI	GCAGTG	1 cut(s)	159
BtsIMutI	CAGTG	2 cut(s)	70, 159
Cac8I	GCNNGC	2 cut(s)	130, 615
CciI	TCATGA	1 cut(s)	550
Cfr13I	GGNCC	3 cut(s)	320, 533, 545
CsiI	ACCWGGT	1 cut(s)	569
CviAII	CATG	3 cut(s)	140, 287, 551
DdeI	CTNAG	2 cut(s)	603, 609
DpnI	GATC	3 cut(s)	82, 138, 308
DpnII	GATC	3 cut(s)	80, 136, 306
Eam1104I	CTCTTC	2 cut(s)	467, 595
EarI	CTCTTC	2 cut(s)	467, 595
Eco130I	CCWWGG	1 cut(s)	298
Eco47I	GGWCC	2 cut(s)	320, 545
Eco57I	CTGAAG	1 cut(s)	30
EcoRII	CCWGG	2 cut(s)	255, 569
EcoT14I	CCWWGG	1 cut(s)	298
ErhI	CCWWGG	1 cut(s)	298
FaeI	CATG	3 cut(s)	143, 290, 554
FaiI	YATR	9 cut(s)	89, 141, 248, 288, 294, 333, 372, 515, 552
FatI	CATG	3 cut(s)	139, 286, 550
FbaI	TGATCA	1 cut(s)	306
FokI	GGATG	2 cut(s)	394, 416
FspBI	CTAG	2 cut(s)	53, 459
HaeIII	GGCC	2 cut(s)	128, 534
Hin1II	CATG	3 cut(s)	143, 290, 554
HindIII	AAGCTT	1 cut(s)	611
HinfI	GANTC	6 cut(s)	200, 276, 385, 524, 554, 585
HphI	GGTGA	1 cut(s)	316
Hpy166II	GTNNAC	1 cut(s)	320
Hpy188I	TCNGA	4 cut(s)	10, 196, 559, 624
Hpy188III	TCNNGA	5 cut(s)	78, 204, 397, 459, 551
Hpy8I	GTNNAC	1 cut(s)	320
HpyAV	CCTTC	3 cut(s)	118, 484, 590
HpyCH4III	ACNGT	2 cut(s)	65, 252
HpyCH4IV	ACGT	1 cut(s)	242
HpyCH4V	TGCA	2 cut(s)	292, 413
HpyF10VI	GCNNNNNNNGC	1 cut(s)	614
HpyF3I	CTNAG	2 cut(s)	603, 609
HpySE526I	ACGT	1 cut(s)	242
Hsp92II	CATG	3 cut(s)	143, 290, 554
Ksp22I	TGATCA	1 cut(s)	306
Kzo9I	GATC	3 cut(s)	80, 136, 306
MabI	ACCWGGT	1 cut(s)	569
MaeI	CTAG	2 cut(s)	53, 459
MaeII	ACGT	1 cut(s)	242
MaeIII	GTNAC	2 cut(s)	70, 157
MalI	GATC	3 cut(s)	82, 138, 308
MbiI	CCGCTC	1 cut(s)	596
MboI	GATC	3 cut(s)	80, 136, 306
MboII	GAAGA	4 cut(s)	181, 385, 484, 582
MflI	RGATCY	1 cut(s)	80
MluCI	AATT	1 cut(s)	361
MlyI	GAGTC	3 cut(s)	194, 285, 579
MmeI	TCCRAC	1 cut(s)	499
MnlI	CCTC	6 cut(s)	100, 265, 333, 393, 480, 558
MroXI	GAANNNNTTC	1 cut(s)	389
MseI	TTAA	3 cut(s)	116, 153, 327
MspR9I	CCNGG	2 cut(s)	257, 571
MvaI	CCWGG	2 cut(s)	257, 571
MwoI	GCNNNNNNNGC	1 cut(s)	614
NdeII	GATC	3 cut(s)	80, 136, 306
NlaIII	CATG	3 cut(s)	143, 290, 554
NmeAIII	GCCGAG	1 cut(s)	510
NmuCI	GTSAC	1 cut(s)	157
PagI	TCATGA	1 cut(s)	550
PcsI	WCGNNNNNNNCGW	1 cut(s)	248
PdmI	GAANNNNTTC	1 cut(s)	389
PfeI	GAWTC	3 cut(s)	385, 524, 554
PleI	GAGTC	3 cut(s)	194, 284, 579
PpsI	GAGTC	3 cut(s)	194, 284, 579
PsiI	TTATAA	1 cut(s)	89
Psp6I	CCWGG	2 cut(s)	255, 569
PspGI	CCWGG	2 cut(s)	255, 569
PspPI	GGNCC	3 cut(s)	320, 533, 545
PsuI	RGATCY	1 cut(s)	80
SaqAI	TTAA	3 cut(s)	116, 153, 327
Sau3AI	GATC	3 cut(s)	80, 136, 306
Sau96I	GGNCC	3 cut(s)	320, 533, 545
SchI	GAGTC	3 cut(s)	194, 285, 579
ScrFI	CCNGG	2 cut(s)	257, 571
SexAI	ACCWGGT	1 cut(s)	569
SfcI	CTRYAG	1 cut(s)	222
SinI	GGWCC	2 cut(s)	320, 545
SmlI	CTYRAG	2 cut(s)	202, 397
SmoI	CTYRAG	2 cut(s)	202, 397
Sse9I	AATT	1 cut(s)	361
SsiI	CCGC	2 cut(s)	68, 594
SspMI	CTAG	2 cut(s)	53, 459
StyD4I	CCNGG	2 cut(s)	255, 569
StyI	CCWWGG	1 cut(s)	298
TaaI	ACNGT	2 cut(s)	65, 252
TaiI	ACGT	1 cut(s)	245
TaqI	TCGA	3 cut(s)	349, 375, 583
TasI	AATT	1 cut(s)	361
TfiI	GAWTC	3 cut(s)	385, 524, 554
Tru1I	TTAA	3 cut(s)	116, 153, 327
Tru9I	TTAA	3 cut(s)	116, 153, 327
TscAI	CASTG	2 cut(s)	70, 166
TseFI	GTSAC	1 cut(s)	157
Tsp45I	GTSAC	1 cut(s)	157
TspDTI	ATGAA	4 cut(s)	235, 398, 443, 567
TspGWI	ACGGA	2 cut(s)	73, 378
TspRI	CASTG	2 cut(s)	70, 166
VpaK11BI	GGWCC	2 cut(s)	320, 545
XbaI	TCTAGA	1 cut(s)	458
XcmI	CCANNNNNNNNNTGG	1 cut(s)	374
XmnI	GAANNNNTTC	1 cut(s)	389
XspI	CTAG	2 cut(s)	53, 459

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