Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001673

Physical Location & Seq

Genomic Coordinates Reverse (-)

43073419 .. 43079667

Gene Structure 6249 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013858

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGGAAGCTGGTTTCCAACTTAATATCCTTATTTTGATATCACTAATACAATTCTATGGGAAGGCCAAGCGAACTGATGATGTTGTCGAGGCATTCAATCAACTACAACAATTGGGCATAACTCCAGATGAGCATTTATGTGGTTATCTCCTGAATATGATGACTCAAACACCAAAGGGTGAACTACCTGAGTTGACTGATTGCATTGAGCGTGGTAATGAGAAGCTTGGATATGTTGTAAGACCTCTGGTAGAGAAGCAAGACAGTAGTCAAAACTTCAGGAAGGAGGCATCAGAACTTTTTAATTTAGTTGGTTCCGATATGAAGGCCTACTACAATTGCTTTATTTGTCTTCATGTGAACCTCCAGCTCTTGAAGAGAGCTTGTGAGTTTCTAAACTTGGGGCTTACACTTGAGATATACACAGATATACAATCAAAGTACCCAACCCAGTGGTCTCTGTCCAAGCCACAGCAGAAACTGGGTGATGCCAAAGTATTCATGATTGGGTCTGGTATACTCGAATGTGAGTTATTGAAACATGTTACCCTGATGGGAGCTTCATGTGGCAACCAGGGGAAGCGAGCAATCATTGATGATGATGTAATTGAGAAGAGTAACCTTAGTAAGCAGATCCTCTTCCGTGATTGGAACATTGGGTGGGCAAAGTCTACAGTTGCCGCTTCTATTGCTGCATCAATAAATCCCAGTCCCCGTCTCGACATTGTAGCGTTGCATAATAGAGTTCGACCTGAAATTGAGAATAAAGATATTCAAGGGAGGCTTGACAAAGAACAAGCAGTTCTTTACTTTGCTCAACTCACCGGCATTGGTTTCACATGCTACTGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006417 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031425 GO:0032268 GO:0032270 GO:0034248 GO:0034250 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045727 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:2000112

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

284

Amino Acids

31.87

Weight (kDa)

5.88

Isoelectric Point (pI)

40.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ThiF	PF00899	157 - 253	4.4e-17	ThiF family

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

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Orthologous Genes (Group: OG0001673)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16390
fragaria_vesca	FvH4_3g00440 FvH4_3g00470
malus_domestica	MD00G1221000.v1.1 MD05G1360400.v1.1 MD08G1234300.v1.1 MD10G1337400.v1.1 MD10G1337800.v1.1 MD10G1338000.v1.1
prunus_persica	Prupe.3G138500_v2.0.a1 Prupe.4G005200_v2.0.a1
pyrus_communis	pycom05g32720 pycom10g28680 pycom10g28700 pycom10g28720 pycom10g28750
rosa_chinensis	RchiOBHm_Chr1g0364151 RchiOBHm_Chr2g0155431 RchiOBHm_Chr4g0402181 RchiOBHm_Chr5g0000631 RchiOBHm_Chr6g0271321
rosa_laevigata	RLG00000004254 RLG00000013858 RLG00000028931 RLG00000030883
rosa_multiflora	Rmu_co8004710.1_g000001 Rmu_co8021096.1_g000001 Rmu_co8161794.1_g000001 Rmu_sc0000795.1_g000110 Rmu_sc0001141.1_g000016 Rmu_sc0003662.1_g000007 Rmu_sc0003699.1_g000009 Rmu_sc0006695.1_g000081 Rmu_sc0010255.1_g000007 Rmu_sc0011992.1_g000014 Rmu_sc0016929.1_g000002 Rmu_sc0017523.1_g000008 Rmu_sc0021532.1_g000001 Rmu_sc0029877.1_g000001
rosa_roxburghii	Rroxscaffold_1G00001310 Rroxscaffold_1G00075570 Rroxscaffold_4G00324290
rosa_rugosa	Rorug04G0385500 Rorug07G0309300.1
rosa_samantha	Rh5AG005400 Rh5BG007000 Rh5CG005700 Rh5DG005600
rosa_wichuraiana	Rw5G000530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	517, 671
AciI	CCGC	1 cut(s)	681
AclWI	GGATC	1 cut(s)	628
AcuI	CTGAAG	1 cut(s)	262
AfaI	GTAC	1 cut(s)	443
AflIII	ACRYGT	1 cut(s)	541
AgsI	TTSAA	4 cut(s)	97, 376, 538, 776
AjnI	CCWGG	1 cut(s)	573
AluBI	AGCT	5 cut(s)	8, 226, 370, 383, 560
AluI	AGCT	5 cut(s)	8, 226, 370, 383, 560
Alw26I	GTCTC	2 cut(s)	462, 722
AlwI	GGATC	1 cut(s)	628
AlwNI	CAGNNNCTG	1 cut(s)	481
AoxI	GGCC	2 cut(s)	63, 327
ApeKI	GCWGC	1 cut(s)	692
AsuHPI	GGTGA	3 cut(s)	191, 497, 814
BarI	GAAGNNNNNNTAC	2 cut(s)	317, 349
BbsI	GAAGAC	1 cut(s)	344
BbvI	GCAGC	1 cut(s)	679
BccI	CCATC	1 cut(s)	547
BciT130I	CCWGG	1 cut(s)	575
BcoDI	GTCTC	2 cut(s)	462, 722
BfmI	CTRYAG	1 cut(s)	672
BisI	GCNGC	2 cut(s)	681, 693
BlsI	GCNGC	2 cut(s)	682, 694
Bme1390I	CCNGG	1 cut(s)	575
BmiI	GGNNCC	1 cut(s)	316
BmrFI	CCNGG	1 cut(s)	575
BmrI	ACTGGG	3 cut(s)	445, 491, 702
BmsI	GCATC	3 cut(s)	299, 478, 704
BmuI	ACTGGG	3 cut(s)	445, 491, 702
BoxI	GACNNNNGTC	1 cut(s)	267
BpiI	GAAGAC	1 cut(s)	344
BpmI	CTGGAG	2 cut(s)	108, 350
BpuEI	CTTGAG	1 cut(s)	434
BsaI	GGTCTC	1 cut(s)	462
BsaJI	CCNNGG	1 cut(s)	574
Bse118I	RCCGGY	1 cut(s)	824
Bse1I	ACTGG	3 cut(s)	451, 486, 708
BseBI	CCWGG	1 cut(s)	575
BseDI	CCNNGG	1 cut(s)	574
BseMII	CTCAG	1 cut(s)	180
BseNI	ACTGG	3 cut(s)	451, 486, 708
BseXI	GCAGC	1 cut(s)	679
BshFI	GGCC	2 cut(s)	65, 329
BsiSI	CCGG	1 cut(s)	825
BslFI	GGGAC	1 cut(s)	696
BsmAI	GTCTC	2 cut(s)	462, 722
BsmBI	CGTCTC	1 cut(s)	722
BsmFI	GGGAC	1 cut(s)	696
BsmI	GAATGC	1 cut(s)	92
BsnI	GGCC	2 cut(s)	65, 329
Bso31I	GGTCTC	1 cut(s)	462
Bsp143I	GATC	1 cut(s)	633
BspACI	CCGC	1 cut(s)	681
BspANI	GGCC	2 cut(s)	65, 329
BspCNI	CTCAG	1 cut(s)	181
BspHI	TCATGA	1 cut(s)	501
BspLI	GGNNCC	1 cut(s)	316
BspPI	GGATC	1 cut(s)	628
BspTNI	GGTCTC	1 cut(s)	462
BsrFI	RCCGGY	1 cut(s)	824
BsrI	ACTGG	3 cut(s)	451, 486, 708
BssAI	RCCGGY	1 cut(s)	824
BssECI	CCNNGG	1 cut(s)	574
BssMI	GATC	1 cut(s)	633
BssNAI	GTATAC	1 cut(s)	518
Bst1107I	GTATAC	1 cut(s)	518
Bst2UI	CCWGG	1 cut(s)	575
Bst4CI	ACNGT	2 cut(s)	266, 676
Bst6I	CTCTTC	3 cut(s)	371, 608, 644
BstC8I	GCNNGC	1 cut(s)	585
BstDEI	CTNAG	2 cut(s)	189, 623
BstKTI	GATC	1 cut(s)	636
BstMAI	GTCTC	2 cut(s)	462, 722
BstMBI	GATC	1 cut(s)	633
BstMWI	GCNNNNNNNGC	1 cut(s)	689
BstNI	CCWGG	1 cut(s)	575
BstNSI	RCATGY	2 cut(s)	545, 843
BstPAI	GACNNNNGTC	1 cut(s)	267
BstSCI	CCNGG	1 cut(s)	573
BstSFI	CTRYAG	1 cut(s)	672
BstV1I	GCAGC	1 cut(s)	679
BstV2I	GAAGAC	1 cut(s)	344
BstX2I	RGATCY	1 cut(s)	633
BstXI	CCANNNNNNTGG	1 cut(s)	453
BstYI	RGATCY	1 cut(s)	633
BstZ17I	GTATAC	1 cut(s)	518
BsuRI	GGCC	2 cut(s)	65, 329
BtsIMutI	CAGTG	1 cut(s)	458
Cac8I	GCNNGC	1 cut(s)	585
CaiI	CAGNNNCTG	1 cut(s)	481
CciI	TCATGA	1 cut(s)	501
Cfr10I	RCCGGY	1 cut(s)	824
Csp6I	GTAC	1 cut(s)	442
CviAII	CATG	5 cut(s)	356, 502, 542, 564, 840
CviQI	GTAC	1 cut(s)	442
DdeI	CTNAG	2 cut(s)	189, 623
DpnI	GATC	1 cut(s)	635
DpnII	GATC	1 cut(s)	633
Eam1104I	CTCTTC	3 cut(s)	371, 608, 644
EarI	CTCTTC	3 cut(s)	371, 608, 644
Eco147I	AGGCCT	1 cut(s)	329
Eco31I	GGTCTC	1 cut(s)	462
Eco32I	GATATC	1 cut(s)	39
Eco57I	CTGAAG	1 cut(s)	262
EcoRII	CCWGG	1 cut(s)	573
EcoRV	GATATC	1 cut(s)	39
Esp3I	CGTCTC	1 cut(s)	722
FaeI	CATG	5 cut(s)	359, 505, 545, 567, 843
FalI	AAGNNNNNCTT	4 cut(s)	768, 800, 789, 821
FaqI	GGGAC	1 cut(s)	696
FatI	CATG	5 cut(s)	355, 501, 541, 563, 839
FblI	GTMKAC	2 cut(s)	517, 671
Fnu4HI	GCNGC	2 cut(s)	681, 693
Fsp4HI	GCNGC	2 cut(s)	681, 693
GluI	GCNGC	2 cut(s)	681, 693
GsuI	CTGGAG	2 cut(s)	108, 350
HaeIII	GGCC	2 cut(s)	65, 329
HapII	CCGG	1 cut(s)	825
Hin1II	CATG	5 cut(s)	359, 505, 545, 567, 843
HincII	GTYRAC	1 cut(s)	195
HindII	GTYRAC	1 cut(s)	195
HindIII	AAGCTT	1 cut(s)	224
HinfI	GANTC	1 cut(s)	163
HpaII	CCGG	1 cut(s)	825
HphI	GGTGA	3 cut(s)	191, 497, 814
Hpy166II	GTNNAC	5 cut(s)	182, 195, 361, 518, 672
Hpy188I	TCNGA	2 cut(s)	295, 319
Hpy188III	TCNNGA	6 cut(s)	125, 151, 280, 373, 502, 719
Hpy8I	GTNNAC	5 cut(s)	182, 195, 361, 518, 672
HpyAV	CCTTC	3 cut(s)	55, 277, 319
HpyCH4III	ACNGT	2 cut(s)	266, 676
HpyCH4V	TGCA	3 cut(s)	204, 695, 736
HpyF10VI	GCNNNNNNNGC	1 cut(s)	689
HpyF3I	CTNAG	2 cut(s)	189, 623
Hsp92II	CATG	5 cut(s)	359, 505, 545, 567, 843
Kzo9I	GATC	1 cut(s)	633
LmnI	GCTCC	1 cut(s)	557
Lsp1109I	GCAGC	1 cut(s)	679
LweI	GCATC	3 cut(s)	299, 478, 704
MaeIII	GTNAC	2 cut(s)	544, 617
MalI	GATC	1 cut(s)	635
MboI	GATC	1 cut(s)	633
MboII	GAAGA	4 cut(s)	344, 388, 625, 631
MfeI	CAATTG	2 cut(s)	110, 337
MflI	RGATCY	1 cut(s)	633
MluCI	AATT	6 cut(s)	50, 110, 304, 337, 606, 756
MlyI	GAGTC	1 cut(s)	157
MmeI	TCCRAC	1 cut(s)	40
MnlI	CCTC	6 cut(s)	82, 255, 280, 374, 647, 774
MseI	TTAA	2 cut(s)	21, 303
MslI	CAYNNNNRTG	1 cut(s)	138
MspI	CCGG	1 cut(s)	825
MspR9I	CCNGG	1 cut(s)	575
MunI	CAATTG	2 cut(s)	110, 337
Mva1269I	GAATGC	1 cut(s)	92
MvaI	CCWGG	1 cut(s)	575
MwoI	GCNNNNNNNGC	1 cut(s)	689
NdeII	GATC	1 cut(s)	633
NlaIII	CATG	5 cut(s)	359, 505, 545, 567, 843
NlaIV	GGNNCC	1 cut(s)	316
NspI	RCATGY	2 cut(s)	545, 843
PagI	TCATGA	1 cut(s)	501
PceI	AGGCCT	1 cut(s)	329
PciI	ACATGT	1 cut(s)	541
PctI	GAATGC	1 cut(s)	92
PkrI	GCNGC	2 cut(s)	682, 694
PleI	GAGTC	1 cut(s)	157
PpsI	GAGTC	1 cut(s)	157
PscI	ACATGT	1 cut(s)	541
PshAI	GACNNNNGTC	1 cut(s)	267
Psp6I	CCWGG	1 cut(s)	573
PspGI	CCWGG	1 cut(s)	573
PspN4I	GGNNCC	1 cut(s)	316
PstNI	CAGNNNCTG	1 cut(s)	481
PsuI	RGATCY	1 cut(s)	633
RsaI	GTAC	1 cut(s)	443
RsaNI	GTAC	1 cut(s)	442
RseI	CAYNNNNRTG	1 cut(s)	138
SaqAI	TTAA	2 cut(s)	21, 303
SatI	GCNGC	2 cut(s)	681, 693
Sau3AI	GATC	1 cut(s)	633
SchI	GAGTC	1 cut(s)	157
ScrFI	CCNGG	1 cut(s)	575
SfaNI	GCATC	3 cut(s)	299, 478, 704
SfcI	CTRYAG	1 cut(s)	672
SmiMI	CAYNNNNRTG	1 cut(s)	138
SmlI	CTYRAG	1 cut(s)	413
SmoI	CTYRAG	1 cut(s)	413
Sse9I	AATT	6 cut(s)	50, 110, 304, 337, 606, 756
SseBI	AGGCCT	1 cut(s)	329
SsiI	CCGC	1 cut(s)	681
StuI	AGGCCT	1 cut(s)	329
StyD4I	CCNGG	1 cut(s)	573
TaaI	ACNGT	2 cut(s)	266, 676
TaqI	TCGA	4 cut(s)	87, 522, 720, 748
TasI	AATT	6 cut(s)	50, 110, 304, 337, 606, 756
TauI	GCSGC	1 cut(s)	683
Tru1I	TTAA	2 cut(s)	21, 303
Tru9I	TTAA	2 cut(s)	21, 303
TscAI	CASTG	1 cut(s)	458
TseI	GCWGC	1 cut(s)	692
TspDTI	ATGAA	4 cut(s)	338, 344, 490, 552
TspGWI	ACGGA	1 cut(s)	632
TspRI	CASTG	1 cut(s)	458
XceI	RCATGY	2 cut(s)	545, 843
XmiI	GTMKAC	2 cut(s)	517, 671

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