Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0009331

Physical Location & Seq

Genomic Coordinates Forward (+)

48698396 .. 48699132

Gene Structure 737 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000025855

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGATTGTTATTGAGTATGTATATGCATTATGTGCTTATCTCCTTAGAGGGATTGATTCCCATATTCTTGTTAGTGGGAGTTATGGTAAACAACTCTTTCCTCAAGTTGGCATTGCTTTCTTGGAAGCCAAATTGAAAAATTTAAGTGACTTACTGAGTAAGGCTATTGAACGAACAAAAGACAACATTGTTAAGAAACAGGCTTTGACATATGAAGAAATTGCAGCAGCACGTGAGGATGAAGAGACACAGGCTGATACTGAAGAATTCAAGTGTGAGATATGTGGGAATCAGAGTTACTGGGGGCGTAGAGCTTTTGAGCGGCATTTAGAGGAATGGCGCCATCATCATGGAATGCGTTGCCTTGGCATACCAAACGCCAAGAACCTCAATGAGATCACATCAATTGAGGAAGCACAAGAATTGTGGAAGAGGATGCAAGCACAGCAAGGTATGAACAAGTGGCACCCAGACCTTGAAGAAGAGTATGAAGACAGAGAGGGCAACATCTATAATAAGAAGACATATACTGATCTGCAGCGAGAGGGACTAATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000389 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005737 GO:0005829 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0022607 GO:0022613 GO:0022618 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043900 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045694 GO:0046483 GO:0050789 GO:0050793 GO:0050794 GO:0051239 GO:0065003 GO:0065007 GO:0070013 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1902494 GO:1990904 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DUF3449 SF3A3 SF3a60_bindingd Telomere_Sde2_2

Protein Analysis

186

Amino Acids

21.64

Weight (kDa)

5.34

Isoelectric Point (pI)

55.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SF3a60_Prp9_C	PF11931	88 - 185	4.8e-39	SF3a60/Prp9 C-terminal

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

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Orthologous Genes (Group: OG0009331)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06160
fragaria_vesca	FvH4_1g22860 FvH4_5g28470 FvH4_7g05370 FvH4_7g06390
malus_domestica	MD01G1219700.v1.1 MD07G1290300.v1.1
prunus_persica	Prupe.2G311500_v2.0.a1
pyrus_communis	pycom01g22950 pycom07g26290
rosa_chinensis	RchiOBHm_Chr1g0331941
rosa_laevigata	RLG00000025855 RLG00000029702
rosa_multiflora	Rmu_sc0004874.1_g000018 Rmu_sc0008128.1_g000009
rosa_roxburghii	Rroxscaffold_4G00318600
rosa_rugosa	Rorug01G0097000
rosa_samantha	Rh1AG121100 Rh1BG092700 Rh1CG115900 Rh1DG127000
rosa_wichuraiana	Rw1G009880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	339, 465
AccBSI	CCGCTC	1 cut(s)	322
AciI	CCGC	1 cut(s)	322
AcsI	RAATTY	2 cut(s)	139, 266
AcuI	CTGAAG	1 cut(s)	282
AcvI	CACGTG	1 cut(s)	233
AcyI	GRCGYC	1 cut(s)	340
AfiI	CCNNNNNNNGG	1 cut(s)	107
AgsI	TTSAA	4 cut(s)	136, 170, 271, 479
AluBI	AGCT	1 cut(s)	314
AluI	AGCT	1 cut(s)	314
Alw26I	GTCTC	1 cut(s)	239
ApeKI	GCWGC	3 cut(s)	224, 227, 538
ApoI	RAATTY	2 cut(s)	139, 266
AspLEI	GCGC	1 cut(s)	342
BanI	GGYRCC	2 cut(s)	339, 465
BbrPI	CACGTG	1 cut(s)	233
BbsI	GAAGAC	2 cut(s)	498, 527
BbvI	GCAGC	3 cut(s)	236, 239, 550
BccI	CCATC	1 cut(s)	351
BcoDI	GTCTC	1 cut(s)	239
BfmI	CTRYAG	1 cut(s)	536
BfoI	RGCGCY	1 cut(s)	343
BisI	GCNGC	4 cut(s)	225, 228, 323, 539
BlsI	GCNGC	4 cut(s)	226, 229, 324, 540
BmiI	GGNNCC	2 cut(s)	341, 467
BmrI	ACTGGG	1 cut(s)	310
BmsI	GCATC	1 cut(s)	426
BmuI	ACTGGG	1 cut(s)	310
BpiI	GAAGAC	2 cut(s)	498, 527
BpuEI	CTTGAG	1 cut(s)	87
BsaAI	YACGTR	1 cut(s)	233
BsaHI	GRCGYC	1 cut(s)	340
BsaJI	CCNNGG	1 cut(s)	364
BsaXI	ACNNNNNCTCC	2 cut(s)	70, 100
Bsc4I	CCNNNNNNNGG	1 cut(s)	107
Bse1I	ACTGG	1 cut(s)	305
Bse3DI	GCAATG	1 cut(s)	111
BseDI	CCNNGG	1 cut(s)	364
BseGI	GGATG	2 cut(s)	244, 441
BseLI	CCNNNNNNNGG	1 cut(s)	107
BseMI	GCAATG	1 cut(s)	111
BseMII	CTCAG	1 cut(s)	146
BseNI	ACTGG	1 cut(s)	305
BseXI	GCAGC	3 cut(s)	236, 239, 550
BshNI	GGYRCC	2 cut(s)	339, 465
BslI	CCNNNNNNNGG	1 cut(s)	107
BsmAI	GTCTC	1 cut(s)	239
BsmI	GAATGC	1 cut(s)	360
Bsp143I	GATC	2 cut(s)	396, 532
BspACI	CCGC	1 cut(s)	322
BspCNI	CTCAG	1 cut(s)	147
BspLI	GGNNCC	2 cut(s)	341, 467
BspMAI	CTGCAG	1 cut(s)	540
BspT107I	GGYRCC	2 cut(s)	339, 465
BsrBI	CCGCTC	1 cut(s)	322
BsrDI	GCAATG	1 cut(s)	111
BsrI	ACTGG	1 cut(s)	305
BssECI	CCNNGG	1 cut(s)	364
BssMI	GATC	2 cut(s)	396, 532
BssNI	GRCGYC	1 cut(s)	340
BssT1I	CCWWGG	1 cut(s)	364
Bst6I	CTCTTC	3 cut(s)	237, 425, 477
BstACI	GRCGYC	1 cut(s)	340
BstAPI	GCANNNNNTGC	1 cut(s)	32
BstBAI	YACGTR	1 cut(s)	233
BstC8I	GCNNGC	1 cut(s)	441
BstDEI	CTNAG	2 cut(s)	44, 155
BstF5I	GGATG	2 cut(s)	244, 441
BstH2I	RGCGCY	1 cut(s)	343
BstHHI	GCGC	1 cut(s)	342
BstKTI	GATC	2 cut(s)	399, 535
BstMAI	GTCTC	1 cut(s)	239
BstMBI	GATC	2 cut(s)	396, 532
BstMWI	GCNNNNNNNGC	2 cut(s)	32, 445
BstSFI	CTRYAG	1 cut(s)	536
BstV1I	GCAGC	3 cut(s)	236, 239, 550
BstV2I	GAAGAC	2 cut(s)	498, 527
BstXI	CCANNNNNNTGG	1 cut(s)	350
BtsCI	GGATG	2 cut(s)	244, 441
Cac8I	GCNNGC	1 cut(s)	441
CfoI	GCGC	1 cut(s)	342
CspCI	CAANNNNNGTGG	2 cut(s)	407, 442
CviAII	CATG	1 cut(s)	350
CviJI	RGCY	5 cut(s)	128, 164, 203, 254, 314
CviKI_1	RGCY	5 cut(s)	128, 164, 203, 254, 314
DdeI	CTNAG	2 cut(s)	44, 155
DinI	GGCGCC	1 cut(s)	341
DpnI	GATC	2 cut(s)	398, 534
DpnII	GATC	2 cut(s)	396, 532
Eam1104I	CTCTTC	3 cut(s)	237, 425, 477
EarI	CTCTTC	3 cut(s)	237, 425, 477
Eco130I	CCWWGG	1 cut(s)	364
Eco57I	CTGAAG	1 cut(s)	282
Eco72I	CACGTG	1 cut(s)	233
EcoRI	GAATTC	1 cut(s)	266
EcoT14I	CCWWGG	1 cut(s)	364
EcoT22I	ATGCAT	1 cut(s)	28
EgeI	GGCGCC	1 cut(s)	341
EheI	GGCGCC	1 cut(s)	341
ErhI	CCWWGG	1 cut(s)	364
FaeI	CATG	1 cut(s)	353
FatI	CATG	1 cut(s)	349
FauNDI	CATATG	1 cut(s)	211
Fnu4HI	GCNGC	4 cut(s)	225, 228, 323, 539
FokI	GGATG	2 cut(s)	251, 448
Fsp4HI	GCNGC	4 cut(s)	225, 228, 323, 539
GlaI	GCGC	1 cut(s)	341
GluI	GCNGC	4 cut(s)	225, 228, 323, 539
HaeII	RGCGCY	1 cut(s)	343
HhaI	GCGC	1 cut(s)	342
Hin1I	GRCGYC	1 cut(s)	340
Hin1II	CATG	1 cut(s)	353
Hin6I	GCGC	1 cut(s)	340
HinP1I	GCGC	1 cut(s)	340
HinfI	GANTC	2 cut(s)	56, 289
Hpy166II	GTNNAC	1 cut(s)	89
Hpy188I	TCNGA	1 cut(s)	294
Hpy8I	GTNNAC	1 cut(s)	89
HpyCH4IV	ACGT	1 cut(s)	232
HpyCH4V	TGCA	4 cut(s)	26, 224, 439, 538
HpyF10VI	GCNNNNNNNGC	2 cut(s)	32, 445
HpyF3I	CTNAG	2 cut(s)	44, 155
HpySE526I	ACGT	1 cut(s)	232
Hsp92I	GRCGYC	1 cut(s)	340
Hsp92II	CATG	1 cut(s)	353
HspAI	GCGC	1 cut(s)	340
KasI	GGCGCC	1 cut(s)	339
Kzo9I	GATC	2 cut(s)	396, 532
LpnPI	CCDG	4 cut(s)	185, 236, 286, 483
Lsp1109I	GCAGC	3 cut(s)	236, 239, 550
LweI	GCATC	1 cut(s)	426
MaeII	ACGT	1 cut(s)	232
MaeIII	GTNAC	2 cut(s)	146, 296
MalI	GATC	2 cut(s)	398, 534
MbiI	CCGCTC	1 cut(s)	322
MboI	GATC	2 cut(s)	396, 532
MboII	GAAGA	8 cut(s)	227, 254, 275, 442, 491, 494, 503, 532
MfeI	CAATTG	1 cut(s)	405
MluCI	AATT	7 cut(s)	131, 139, 219, 266, 405, 422, 552
Mly113I	GGCGCC	1 cut(s)	340
MnlI	CCTC	9 cut(s)	41, 111, 229, 325, 398, 403, 426, 493, 538
Mph1103I	ATGCAT	1 cut(s)	28
MseI	TTAA	3 cut(s)	143, 192, 556
MslI	CAYNNNNRTG	1 cut(s)	348
MunI	CAATTG	1 cut(s)	405
Mva1269I	GAATGC	1 cut(s)	360
MwoI	GCNNNNNNNGC	2 cut(s)	32, 445
NarI	GGCGCC	1 cut(s)	340
NdeI	CATATG	1 cut(s)	211
NdeII	GATC	2 cut(s)	396, 532
NlaIII	CATG	1 cut(s)	353
NlaIV	GGNNCC	2 cut(s)	341, 467
NmuCI	GTSAC	1 cut(s)	146
NsiI	ATGCAT	1 cut(s)	28
PctI	GAATGC	1 cut(s)	360
PfeI	GAWTC	2 cut(s)	56, 289
PkrI	GCNGC	4 cut(s)	226, 229, 324, 540
PluTI	GGCGCC	1 cut(s)	343
PmaCI	CACGTG	1 cut(s)	233
PmlI	CACGTG	1 cut(s)	233
Ppu21I	YACGTR	1 cut(s)	233
PspCI	CACGTG	1 cut(s)	233
PspN4I	GGNNCC	2 cut(s)	341, 467
PstI	CTGCAG	1 cut(s)	540
RseI	CAYNNNNRTG	1 cut(s)	348
SaqAI	TTAA	3 cut(s)	143, 192, 556
SatI	GCNGC	4 cut(s)	225, 228, 323, 539
Sau3AI	GATC	2 cut(s)	396, 532
SetI	ASST	5 cut(s)	235, 316, 390, 454, 477
SfaNI	GCATC	1 cut(s)	426
SfcI	CTRYAG	1 cut(s)	536
SfoI	GGCGCC	1 cut(s)	341
SmiMI	CAYNNNNRTG	1 cut(s)	348
SmlI	CTYRAG	1 cut(s)	102
SmoI	CTYRAG	1 cut(s)	102
Sse9I	AATT	7 cut(s)	131, 139, 219, 266, 405, 422, 552
SsiI	CCGC	1 cut(s)	322
SspDI	GGCGCC	1 cut(s)	339
StyI	CCWWGG	1 cut(s)	364
TaiI	ACGT	1 cut(s)	235
TasI	AATT	7 cut(s)	131, 139, 219, 266, 405, 422, 552
TauI	GCSGC	1 cut(s)	325
TfiI	GAWTC	2 cut(s)	56, 289
Tru1I	TTAA	3 cut(s)	143, 192, 556
Tru9I	TTAA	3 cut(s)	143, 192, 556
TseFI	GTSAC	1 cut(s)	146
TseI	GCWGC	3 cut(s)	224, 227, 538
Tsp45I	GTSAC	1 cut(s)	146
TspDTI	ATGAA	4 cut(s)	228, 255, 470, 504
XapI	RAATTY	2 cut(s)	139, 266
Zsp2I	ATGCAT	1 cut(s)	28

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