Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0005903

Physical Location & Seq

Genomic Coordinates Reverse (-)

16307670 .. 16309541

Gene Structure 1872 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012216

Sequence Viewer

CDS Protein Promoter (2k)

Length: 855 bp

ATGTCCAAGAAGACCCAAGGCCGCAAGAAAATTGAGATCAAGAAGCTAGAGAACTCTAGCAACAAACAAGTCACATTCTCGAAACGCTGTGCCGACATATTCATAAAAGCCGGCGAGCTTAGTGTGCTTTGCGGCGCTCATGTGGCCATTATAGTGTTCTCTGGCGCAGGGAAGGTGTTTTTCTATGGACACCCGAACATCAACACGGTGCTCGAGAGCTATCAGAACGGTCTTAGTTCAGTCGTCAGAGTCAATGAGGAGGCTAGCGATTTGCTGGTGGTAGAGTTCAACAAAGAGTACGTGGAGACGGAGAAGGAGTTTGAGGATTTGAAGAGGAAAGCCACGGGGATTAAACAGATGGCGGATGAGAAGAAGAAGATGATGAAGGAAATGAATATGAGTGAGGGGTTTTGGTGGGATGAGGCTGTGGATTTGGCAATGATGGATAAACGGGAAGGGGAGCAGTACTTCAAGGTGTTGGAAGAGCTAAGGCGAAAGGTGGCTGCTAGGGTTGATGAGTTGAAGATTTTGAATGGGACTATGATGGGGCTGCCGGTCCTGGTCCCGGTGGTTCATCATCGGCTTTGTCATGTGCCGTTCATGACTGCCAATAATAGATTTTTTTCCCTCTTGTACTGTTTAGAGGATGGTAAATTAGTTATTCATACACATCCCTGCAATGAACAACAAAAATCATTGAATTACTACTCTGCCTTTCTAGTTGTCTCAAACAAGAGACTGCGAGCCGCATTGTCGAAACCAGTAGTATTAGGCTCCAAGGGCACTCAAAGGCACATTACATTTCTTGTGTCTGGATCCAGCGATCTCAGAACAAGTAACCTATCTCAAGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051049 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04010 ko04011 ko04013 ko04022 ko04111 ko04371 ko04921 ko05202 ko05418 map04010 map04011 map04013 map04022 map04111 map04371 map04921 map05202 map05418

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

285

Amino Acids

32.22

Weight (kDa)

9.21

Isoelectric Point (pI)

39.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	15 - 61	1.3e-18	SRF-type transcription factor (DNA-binding and dimerisation domain)

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: OG0005903)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g40280 FvH4_4g35860
malus_domestica	MD02G1221000.v1.1 MD15G1322300.v1.1
prunus_persica	Prupe.2G120200_v2.0.a1
pyrus_communis	pycom02g18540
rosa_chinensis	RchiOBHm_Chr3g0480601 RchiOBHm_Chr4g0445441 RchiOBHm_Chr6g0300471
rosa_laevigata	RLG00000005740 RLG00000011335 RLG00000012216
rosa_multiflora	Rmu_sc0001476.1_g000003 Rmu_sc0001509.1_g000008
rosa_roxburghii	Rroxscaffold_5G00385950 Rroxscaffold_7G00167760
rosa_rugosa	Rorug04G0361300 Rorug06G0296300
rosa_samantha	Rh4AG422800 Rh4BG434800 Rh4CG449700 Rh4DG431000 Rh6AG408900 Rh6BG416200 Rh6CG423700 Rh6DG409400
rosa_wichuraiana	Rw4G036260 Rw6G035780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	22, 132, 362, 747
AclWI	GGATC	2 cut(s)	810, 823
AcoI	YGGCCR	1 cut(s)	144
AfaI	GTAC	3 cut(s)	299, 467, 635
AfiI	CCNNNNNNNGG	1 cut(s)	565
AgsI	TTSAA	6 cut(s)	289, 331, 472, 523, 532, 700
AjnI	CCWGG	1 cut(s)	558
AluBI	AGCT	4 cut(s)	46, 118, 219, 487
AluI	AGCT	4 cut(s)	46, 118, 219, 487
Alw21I	GWGCWC	1 cut(s)	213
Alw26I	GTCTC	3 cut(s)	299, 730, 730
AlwI	GGATC	2 cut(s)	810, 823
Ama87I	CYCGRG	1 cut(s)	212
AoxI	GGCC	2 cut(s)	19, 144
ApeKI	GCWGC	2 cut(s)	503, 550
AspLEI	GCGC	2 cut(s)	137, 167
AspS9I	GGNCC	2 cut(s)	556, 562
AsuC2I	CCSGG	1 cut(s)	566
AsuNHI	GCTAGC	1 cut(s)	263
AvaI	CYCGRG	1 cut(s)	212
AvaII	GGWCC	2 cut(s)	556, 562
BaeGI	GKGCMC	1 cut(s)	785
BalI	TGGCCA	1 cut(s)	146
BamHI	GGATCC	1 cut(s)	815
BbsI	GAAGAC	1 cut(s)	17
Bbv12I	GWGCWC	1 cut(s)	213
BbvI	GCAGC	2 cut(s)	490, 537
BccI	CCATC	4 cut(s)	352, 436, 538, 641
BceAI	ACGGC	1 cut(s)	580
BciT130I	CCWGG	1 cut(s)	560
BcnI	CCSGG	1 cut(s)	566
BcoDI	GTCTC	3 cut(s)	299, 730, 730
BfaI	CTAG	5 cut(s)	47, 57, 264, 507, 719
BfoI	RGCGCY	1 cut(s)	138
BisI	GCNGC	5 cut(s)	22, 133, 504, 551, 747
BlsI	GCNGC	5 cut(s)	23, 134, 505, 552, 748
BmcAI	AGTACT	1 cut(s)	467
Bme1390I	CCNGG	2 cut(s)	560, 566
Bme18I	GGWCC	2 cut(s)	556, 562
BmeT110I	CYCGRG	1 cut(s)	212
BmgT120I	GGNCC	2 cut(s)	556, 562
BmiI	GGNNCC	3 cut(s)	564, 775, 817
BmrFI	CCNGG	2 cut(s)	560, 566
BmtI	GCTAGC	1 cut(s)	267
BpiI	GAAGAC	1 cut(s)	17
Bpu10I	CCTNAGC	1 cut(s)	488
BpuEI	CTTGAG	1 cut(s)	831
BpuMI	CCSGG	1 cut(s)	566
BsaAI	YACGTR	1 cut(s)	301
BsaJI	CCNNGG	3 cut(s)	16, 342, 777
BsaXI	ACNNNNNCTCC	2 cut(s)	302, 332
Bsc4I	CCNNNNNNNGG	1 cut(s)	565
Bse118I	RCCGGY	2 cut(s)	110, 553
Bse1I	ACTGG	1 cut(s)	761
Bse3DI	GCAATG	2 cut(s)	444, 685
BseBI	CCWGG	1 cut(s)	560
BseDI	CCNNGG	3 cut(s)	16, 342, 777
BseGI	GGATG	4 cut(s)	370, 424, 652, 670
BseLI	CCNNNNNNNGG	1 cut(s)	565
BseMI	GCAATG	2 cut(s)	444, 685
BseMII	CTCAG	1 cut(s)	841
BseNI	ACTGG	1 cut(s)	761
BseRI	GAGGAG	1 cut(s)	272
BseSI	GKGCMC	1 cut(s)	785
BseXI	GCAGC	2 cut(s)	490, 537
BshFI	GGCC	2 cut(s)	21, 146
BsiHKAI	GWGCWC	1 cut(s)	213
BsiHKCI	CYCGRG	1 cut(s)	212
BsiSI	CCGG	3 cut(s)	111, 554, 566
BslFI	GGGAC	2 cut(s)	548, 550
BslI	CCNNNNNNNGG	1 cut(s)	565
BsmAI	GTCTC	3 cut(s)	299, 730, 730
BsmBI	CGTCTC	1 cut(s)	299
BsmFI	GGGAC	2 cut(s)	548, 550
BsnI	GGCC	2 cut(s)	21, 146
BsoBI	CYCGRG	1 cut(s)	212
Bsp1286I	GDGCHC	2 cut(s)	213, 785
Bsp143I	GATC	3 cut(s)	36, 815, 823
BspACI	CCGC	4 cut(s)	22, 132, 362, 747
BspANI	GGCC	2 cut(s)	21, 146
BspCNI	CTCAG	1 cut(s)	840
BspHI	TCATGA	1 cut(s)	600
BspLI	GGNNCC	3 cut(s)	564, 775, 817
BspOI	GCTAGC	1 cut(s)	267
BspPI	GGATC	2 cut(s)	810, 823
BspQI	GCTCTTC	1 cut(s)	477
BsrDI	GCAATG	2 cut(s)	444, 685
BsrFI	RCCGGY	2 cut(s)	110, 553
BsrI	ACTGG	1 cut(s)	761
BssAI	RCCGGY	2 cut(s)	110, 553
BssECI	CCNNGG	3 cut(s)	16, 342, 777
BssMI	GATC	3 cut(s)	36, 815, 823
BssT1I	CCWWGG	2 cut(s)	16, 777
Bst2UI	CCWGG	1 cut(s)	560
Bst4CI	ACNGT	3 cut(s)	208, 230, 638
Bst6I	CTCTTC	2 cut(s)	326, 477
BstBAI	YACGTR	1 cut(s)	301
BstC8I	GCNNGC	4 cut(s)	112, 116, 265, 744
BstDEI	CTNAG	4 cut(s)	119, 233, 488, 827
BstDSI	CCRYGG	1 cut(s)	342
BstF5I	GGATG	4 cut(s)	370, 424, 652, 670
BstH2I	RGCGCY	1 cut(s)	138
BstHHI	GCGC	2 cut(s)	137, 167
BstKTI	GATC	3 cut(s)	39, 818, 826
BstMAI	GTCTC	3 cut(s)	299, 730, 730
BstMBI	GATC	3 cut(s)	36, 815, 823
BstMWI	GCNNNNNNNGC	3 cut(s)	124, 143, 780
BstNI	CCWGG	1 cut(s)	560
BstSCI	CCNGG	2 cut(s)	558, 564
BstSLI	GKGCMC	1 cut(s)	785
BstV1I	GCAGC	2 cut(s)	490, 537
BstV2I	GAAGAC	1 cut(s)	17
BstX2I	RGATCY	1 cut(s)	815
BstYI	RGATCY	1 cut(s)	815
BsuRI	GGCC	2 cut(s)	21, 146
BtgI	CCRYGG	1 cut(s)	342
BtsCI	GGATG	4 cut(s)	370, 424, 652, 670
Cac8I	GCNNGC	4 cut(s)	112, 116, 265, 744
CciI	TCATGA	1 cut(s)	600
CfoI	GCGC	2 cut(s)	137, 167
Cfr10I	RCCGGY	2 cut(s)	110, 553
Cfr13I	GGNCC	2 cut(s)	556, 562
Csp6I	GTAC	3 cut(s)	298, 466, 634
CviAII	CATG	3 cut(s)	140, 590, 601
CviQI	GTAC	3 cut(s)	298, 466, 634
DdeI	CTNAG	4 cut(s)	119, 233, 488, 827
DpnI	GATC	3 cut(s)	38, 817, 825
DpnII	GATC	3 cut(s)	36, 815, 823
EaeI	YGGCCR	1 cut(s)	144
Eam1104I	CTCTTC	2 cut(s)	326, 477
EarI	CTCTTC	2 cut(s)	326, 477
EciI	GGCGGA	1 cut(s)	377
Eco130I	CCWWGG	2 cut(s)	16, 777
Eco47I	GGWCC	2 cut(s)	556, 562
Eco88I	CYCGRG	1 cut(s)	212
EcoRII	CCWGG	1 cut(s)	558
EcoT14I	CCWWGG	2 cut(s)	16, 777
ErhI	CCWWGG	2 cut(s)	16, 777
Esp3I	CGTCTC	1 cut(s)	299
FaeI	CATG	3 cut(s)	143, 593, 604
FaqI	GGGAC	2 cut(s)	548, 550
FatI	CATG	3 cut(s)	139, 589, 600
Fnu4HI	GCNGC	5 cut(s)	22, 133, 504, 551, 747
FokI	GGATG	4 cut(s)	377, 431, 657, 659
Fsp4HI	GCNGC	5 cut(s)	22, 133, 504, 551, 747
FspBI	CTAG	5 cut(s)	47, 57, 264, 507, 719
GlaI	GCGC	2 cut(s)	136, 166
GluI	GCNGC	5 cut(s)	22, 133, 504, 551, 747
HaeII	RGCGCY	1 cut(s)	138
HaeIII	GGCC	2 cut(s)	21, 146
HapII	CCGG	3 cut(s)	111, 554, 566
HhaI	GCGC	2 cut(s)	137, 167
Hin1II	CATG	3 cut(s)	143, 593, 604
Hin6I	GCGC	2 cut(s)	135, 165
HinP1I	GCGC	2 cut(s)	135, 165
HinfI	GANTC	1 cut(s)	249
HpaII	CCGG	3 cut(s)	111, 554, 566
Hpy188I	TCNGA	3 cut(s)	225, 248, 830
Hpy188III	TCNNGA	5 cut(s)	40, 79, 214, 601, 813
HpyAV	CCTTC	4 cut(s)	166, 307, 379, 449
HpyCH4III	ACNGT	3 cut(s)	208, 230, 638
HpyCH4IV	ACGT	1 cut(s)	300
HpyCH4V	TGCA	1 cut(s)	678
HpyF10VI	GCNNNNNNNGC	3 cut(s)	124, 143, 780
HpyF3I	CTNAG	4 cut(s)	119, 233, 488, 827
HpySE526I	ACGT	1 cut(s)	300
Hsp92II	CATG	3 cut(s)	143, 593, 604
HspAI	GCGC	2 cut(s)	135, 165
KroI	GCCGGC	1 cut(s)	110
KroNI	GCCGGC	1 cut(s)	112
Kzo9I	GATC	3 cut(s)	36, 815, 823
LguI	GCTCTTC	1 cut(s)	477
LmnI	GCTCC	2 cut(s)	460, 779
Lsp1109I	GCAGC	2 cut(s)	490, 537
MaeI	CTAG	5 cut(s)	47, 57, 264, 507, 719
MaeII	ACGT	1 cut(s)	300
MaeIII	GTNAC	2 cut(s)	70, 836
MalI	GATC	3 cut(s)	38, 817, 825
MboI	GATC	3 cut(s)	36, 815, 823
MboII	GAAGA	7 cut(s)	22, 343, 382, 385, 388, 494, 535
MflI	RGATCY	1 cut(s)	815
MhlI	GDGCHC	2 cut(s)	213, 785
MlsI	TGGCCA	1 cut(s)	146
MluCI	AATT	3 cut(s)	30, 653, 700
MluNI	TGGCCA	1 cut(s)	146
MlyI	GAGTC	1 cut(s)	258
MmeI	TCCRAC	1 cut(s)	459
MnlI	CCTC	8 cut(s)	250, 253, 316, 327, 397, 415, 637, 638
Mox20I	TGGCCA	1 cut(s)	146
MroNI	GCCGGC	1 cut(s)	110
MscI	TGGCCA	1 cut(s)	146
MseI	TTAA	1 cut(s)	351
MslI	CAYNNNNRTG	1 cut(s)	152
Msp20I	TGGCCA	1 cut(s)	146
MspI	CCGG	3 cut(s)	111, 554, 566
MspR9I	CCNGG	2 cut(s)	560, 566
MvaI	CCWGG	1 cut(s)	560
MwoI	GCNNNNNNNGC	3 cut(s)	124, 143, 780
NaeI	GCCGGC	1 cut(s)	112
NciI	CCSGG	1 cut(s)	566
NdeII	GATC	3 cut(s)	36, 815, 823
NgoMIV	GCCGGC	1 cut(s)	110
NheI	GCTAGC	1 cut(s)	263
NlaIII	CATG	3 cut(s)	143, 593, 604
NlaIV	GGNNCC	3 cut(s)	564, 775, 817
NmuCI	GTSAC	1 cut(s)	70
PaeR7I	CTCGAG	1 cut(s)	212
PagI	TCATGA	1 cut(s)	600
PciSI	GCTCTTC	1 cut(s)	477
PdiI	GCCGGC	1 cut(s)	112
PkrI	GCNGC	5 cut(s)	23, 134, 505, 552, 748
PleI	GAGTC	1 cut(s)	257
PpsI	GAGTC	1 cut(s)	257
Ppu21I	YACGTR	1 cut(s)	301
Psp6I	CCWGG	1 cut(s)	558
PspGI	CCWGG	1 cut(s)	558
PspN4I	GGNNCC	3 cut(s)	564, 775, 817
PspPI	GGNCC	2 cut(s)	556, 562
PsuI	RGATCY	1 cut(s)	815
RsaI	GTAC	3 cut(s)	299, 467, 635
RsaNI	GTAC	3 cut(s)	298, 466, 634
RseI	CAYNNNNRTG	1 cut(s)	152
SapI	GCTCTTC	1 cut(s)	477
SaqAI	TTAA	1 cut(s)	351
SatI	GCNGC	5 cut(s)	22, 133, 504, 551, 747
Sau3AI	GATC	3 cut(s)	36, 815, 823
Sau96I	GGNCC	2 cut(s)	556, 562
ScaI	AGTACT	1 cut(s)	467
SchI	GAGTC	1 cut(s)	258
ScrFI	CCNGG	2 cut(s)	560, 566
SduI	GDGCHC	2 cut(s)	213, 785
SetI	ASST	9 cut(s)	48, 120, 177, 221, 303, 477, 489, 501, 843
Sfr274I	CTCGAG	1 cut(s)	212
SinI	GGWCC	2 cut(s)	556, 562
SlaI	CTCGAG	1 cut(s)	212
SmiMI	CAYNNNNRTG	1 cut(s)	152
SmlI	CTYRAG	2 cut(s)	212, 846
SmoI	CTYRAG	2 cut(s)	212, 846
Sse9I	AATT	3 cut(s)	30, 653, 700
SsiI	CCGC	4 cut(s)	22, 132, 362, 747
SspMI	CTAG	5 cut(s)	47, 57, 264, 507, 719
StyD4I	CCNGG	2 cut(s)	558, 564
StyI	CCWWGG	2 cut(s)	16, 777
TaaI	ACNGT	3 cut(s)	208, 230, 638
TaiI	ACGT	1 cut(s)	303
TaqI	TCGA	3 cut(s)	80, 213, 755
TasI	AATT	3 cut(s)	30, 653, 700
TatI	WGTACW	2 cut(s)	465, 633
TauI	GCSGC	3 cut(s)	24, 135, 749
Tru1I	TTAA	1 cut(s)	351
Tru9I	TTAA	1 cut(s)	351
TseFI	GTSAC	1 cut(s)	70
TseI	GCWGC	2 cut(s)	503, 550
Tsp45I	GTSAC	1 cut(s)	70
TspDTI	ATGAA	7 cut(s)	91, 398, 407, 563, 589, 653, 696
TspGWI	ACGGA	1 cut(s)	323
VpaK11BI	GGWCC	2 cut(s)	556, 562
XhoI	CTCGAG	1 cut(s)	212
XspI	CTAG	5 cut(s)	47, 57, 264, 507, 719
ZrmI	AGTACT	1 cut(s)	467

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