Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0005143

Physical Location & Seq

Genomic Coordinates Forward (+)

53550306 .. 53553788

Gene Structure 3483 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003851

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGGCATTGCAAGAAAGCTTAGATAGATTCAAGAAGCAGCAAGAGAAGTGCCAGTCGACCCTGACCAGCATTGCCTCTAAAAAGGCCGCAGCAAACCCCAGAGCTGTTCCCATAGCAGCTGCTAGGGCTCCTGCTCCACCTATTAAATTTTCAAATGATACAGAGAGACTCCAACACATTAATAGCATACGGAAAGGCCCAGTTGGATCTCAGATCAAGCGTGTTATAGACCTGCTTCTAGAGACAAGGCAGGCCTTTACACCAGAGCTAATTAATGAACAATGTTTTGTTGATGTGAATGCCAACAAAGCTGTCTTTGACAGTCTGAGGAATAACCCAAAAGTTCACTATGATGGGAAGCGCTTTTCTTATAAGTCCAAGCATGCTCTGAAGGACAAAAATCAACTCCGGTCCTTAATACGGAAATTTTCAGAGGGCATACCTGTCATTGATCTGAAGGATTCATACCCAACTGTGATGGAGGATTTGCAGGCTTTGAAAGCTGCAGGTGACATATGGCTACTTTCGAACTTTGATTCACAAGAGGACATTGCTTATCCAAATGACCCCAGGTTGCCTTCTACTAAGGTGGACGATGAGCTTAAACTTTTCTTCAGGGGGATTGAACTGCCTCGTGATATGCTGGACATAGAGAGGGATCTTCAGAAGAATGGTATGAAGCCGGCCACAGACACTGCAAAGAGGAGGGCTGTTGCCCAGAGTCAAGGCATTCAAGCCAAATCCAAGCCCAAGAAGAAGAAGAATGAGATCAGCAAGAGGACCAAGTTGACCAATGCCCATCTTCCAGAGCTTTTCAAGGATTTGAAAGGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005673 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIE_beta

Protein Analysis

278

Amino Acids

31.32

Weight (kDa)

9.74

Isoelectric Point (pI)

47.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFA2_Winged_2	PF18121	131 - 188	4.5e-17	TFA2 Winged helix domain 2

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: OG0005143)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20330
fragaria_vesca	FvH4_3g33500 FvH4_5g01870
malus_domestica	MD06G1076900.v1.1 MD14G1098300.v1.1
prunus_persica	Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1
pyrus_communis	pycom06g07450 pycom14g09650
rosa_chinensis	RchiOBHm_Chr5g0060921 RchiOBHm_Chr7g0198651
rosa_laevigata	RLG00000003851 RLG00000035413
rosa_multiflora	Rmu_sc0000420.1_g000016 Rmu_sc0009374.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019720 Rroxscaffold_3G00257560
rosa_rugosa	Rorug05G0334900 Rorug05G0335000 Rorug07G0048900
rosa_samantha	Rh5AG397900 Rh5BG410500 Rh5CG435700 Rh5DG425100 Rh7AG172500 Rh7BG176000 Rh7CG181900
rosa_wichuraiana	Rw5G037520 Rw7G015140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	372
AarI	CACCTGC	1 cut(s)	497
Acc36I	ACCTGC	2 cut(s)	240, 497
AccI	GTMKAC	1 cut(s)	56
AciI	CCGC	1 cut(s)	87
AclWI	GGATC	2 cut(s)	214, 666
AcoI	YGGCCR	1 cut(s)	684
AcsI	RAATTY	2 cut(s)	146, 425
AcuI	CTGAAG	4 cut(s)	410, 476, 598, 647
AfeI	AGCGCT	1 cut(s)	362
AfiI	CCNNNNNNNGG	1 cut(s)	420
AgsI	TTSAA	7 cut(s)	31, 153, 499, 626, 734, 817, 826
AjnI	CCWGG	1 cut(s)	569
AluBI	AGCT	8 cut(s)	18, 104, 119, 268, 311, 503, 601, 811
AluI	AGCT	8 cut(s)	18, 104, 119, 268, 311, 503, 601, 811
Alw26I	GTCTC	2 cut(s)	160, 236
AlwI	GGATC	2 cut(s)	214, 666
AlwNI	CAGNNNCTG	1 cut(s)	695
Aor51HI	AGCGCT	1 cut(s)	362
AoxI	GGCC	4 cut(s)	84, 196, 252, 684
ApeKI	GCWGC	5 cut(s)	37, 89, 116, 119, 503
ApoI	RAATTY	2 cut(s)	146, 425
AseI	ATTAAT	2 cut(s)	180, 273
AspLEI	GCGC	1 cut(s)	363
AspS9I	GGNCC	3 cut(s)	197, 411, 780
AsuHPI	GGTGA	1 cut(s)	521
AsuII	TTCGAA	1 cut(s)	527
AvaII	GGWCC	2 cut(s)	411, 780
BanII	GRGCYC	1 cut(s)	130
BarI	GAAGNNNNNNTAC	2 cut(s)	449, 481
BauI	CACGAG	1 cut(s)	633
BbvI	GCAGC	5 cut(s)	49, 101, 106, 128, 490
BccI	CCATC	3 cut(s)	347, 472, 807
BciT130I	CCWGG	1 cut(s)	571
BcoDI	GTCTC	2 cut(s)	160, 236
BfaI	CTAG	3 cut(s)	123, 239, 832
BfmI	CTRYAG	1 cut(s)	504
BfoI	RGCGCY	1 cut(s)	364
BfuAI	ACCTGC	2 cut(s)	240, 497
BisI	GCNGC	6 cut(s)	38, 87, 90, 117, 120, 504
BlsI	GCNGC	6 cut(s)	39, 88, 91, 118, 121, 505
Bme1390I	CCNGG	1 cut(s)	571
Bme18I	GGWCC	2 cut(s)	411, 780
BmgT120I	GGNCC	3 cut(s)	197, 411, 780
BmiI	GGNNCC	1 cut(s)	129
BmrFI	CCNGG	1 cut(s)	571
BmrI	ACTGGG	1 cut(s)	194
BmuI	ACTGGG	1 cut(s)	194
Bpu14I	TTCGAA	1 cut(s)	527
BsaJI	CCNNGG	1 cut(s)	569
BsaWI	WCCGGW	1 cut(s)	408
Bsc4I	CCNNNNNNNGG	1 cut(s)	420
Bse118I	RCCGGY	1 cut(s)	682
Bse1I	ACTGG	2 cut(s)	52, 200
Bse3DI	GCAATG	3 cut(s)	5, 69, 549
BseBI	CCWGG	1 cut(s)	571
BseDI	CCNNGG	1 cut(s)	569
BseLI	CCNNNNNNNGG	1 cut(s)	420
BseMI	GCAATG	3 cut(s)	5, 69, 549
BseMII	CTCAG	2 cut(s)	224, 317
BseNI	ACTGG	2 cut(s)	52, 200
BseRI	GAGGAG	1 cut(s)	718
BseXI	GCAGC	5 cut(s)	49, 101, 106, 128, 490
BshFI	GGCC	4 cut(s)	86, 198, 254, 686
BsiSI	CCGG	2 cut(s)	409, 683
BslI	CCNNNNNNNGG	1 cut(s)	420
BsmAI	GTCTC	2 cut(s)	160, 236
BsmI	GAATGC	2 cut(s)	304, 729
BsnI	GGCC	4 cut(s)	86, 198, 254, 686
Bsp119I	TTCGAA	1 cut(s)	527
Bsp1286I	GDGCHC	1 cut(s)	130
Bsp143I	GATC	5 cut(s)	206, 213, 451, 658, 768
BspACI	CCGC	1 cut(s)	87
BspANI	GGCC	4 cut(s)	86, 198, 254, 686
BspCNI	CTCAG	2 cut(s)	223, 318
BspLI	GGNNCC	1 cut(s)	129
BspMAI	CTGCAG	1 cut(s)	508
BspMI	ACCTGC	2 cut(s)	240, 497
BspPI	GGATC	2 cut(s)	214, 666
BspT104I	TTCGAA	1 cut(s)	527
BsrDI	GCAATG	3 cut(s)	5, 69, 549
BsrFI	RCCGGY	1 cut(s)	682
BsrI	ACTGG	2 cut(s)	52, 200
BssAI	RCCGGY	1 cut(s)	682
BssECI	CCNNGG	1 cut(s)	569
BssMI	GATC	5 cut(s)	206, 213, 451, 658, 768
BssSI	CACGAG	1 cut(s)	633
Bst2BI	CACGAG	1 cut(s)	633
Bst2UI	CCWGG	1 cut(s)	571
Bst4CI	ACNGT	2 cut(s)	323, 475
BstBI	TTCGAA	1 cut(s)	527
BstC8I	GCNNGC	4 cut(s)	252, 384, 492, 684
BstDEI	CTNAG	4 cut(s)	19, 210, 326, 585
BstH2I	RGCGCY	1 cut(s)	364
BstHHI	GCGC	1 cut(s)	363
BstKTI	GATC	5 cut(s)	209, 216, 454, 661, 771
BstMAI	GTCTC	2 cut(s)	160, 236
BstMBI	GATC	5 cut(s)	206, 213, 451, 658, 768
BstMWI	GCNNNNNNNGC	3 cut(s)	125, 308, 500
BstNI	CCWGG	1 cut(s)	571
BstNSI	RCATGY	1 cut(s)	386
BstSCI	CCNGG	1 cut(s)	569
BstSFI	CTRYAG	1 cut(s)	504
BstV1I	GCAGC	5 cut(s)	49, 101, 106, 128, 490
BstX2I	RGATCY	2 cut(s)	206, 658
BstYI	RGATCY	2 cut(s)	206, 658
BsuRI	GGCC	4 cut(s)	86, 198, 254, 686
BtsI	GCAGTG	1 cut(s)	693
BtsIMutI	CAGTG	1 cut(s)	693
BveI	ACCTGC	2 cut(s)	240, 497
Cac8I	GCNNGC	4 cut(s)	252, 384, 492, 684
CaiI	CAGNNNCTG	1 cut(s)	695
CfoI	GCGC	1 cut(s)	363
Cfr10I	RCCGGY	1 cut(s)	682
Cfr13I	GGNCC	3 cut(s)	197, 411, 780
CviAII	CATG	1 cut(s)	383
DdeI	CTNAG	4 cut(s)	19, 210, 326, 585
DpnI	GATC	5 cut(s)	208, 215, 453, 660, 770
DpnII	GATC	5 cut(s)	206, 213, 451, 658, 768
EaeI	YGGCCR	1 cut(s)	684
Eco147I	AGGCCT	1 cut(s)	254
Eco24I	GRGCYC	1 cut(s)	130
Eco47I	GGWCC	2 cut(s)	411, 780
Eco47III	AGCGCT	1 cut(s)	362
Eco57I	CTGAAG	4 cut(s)	410, 476, 598, 647
EcoRII	CCWGG	1 cut(s)	569
EcoT38I	GRGCYC	1 cut(s)	130
FaeI	CATG	1 cut(s)	386
FatI	CATG	1 cut(s)	382
FauNDI	CATATG	1 cut(s)	515
FblI	GTMKAC	1 cut(s)	56
Fnu4HI	GCNGC	6 cut(s)	38, 87, 90, 117, 120, 504
FriOI	GRGCYC	1 cut(s)	130
Fsp4HI	GCNGC	6 cut(s)	38, 87, 90, 117, 120, 504
FspBI	CTAG	3 cut(s)	123, 239, 832
GlaI	GCGC	1 cut(s)	362
GluI	GCNGC	6 cut(s)	38, 87, 90, 117, 120, 504
HaeII	RGCGCY	1 cut(s)	364
HaeIII	GGCC	4 cut(s)	86, 198, 254, 686
HapII	CCGG	2 cut(s)	409, 683
HhaI	GCGC	1 cut(s)	363
Hin1II	CATG	1 cut(s)	386
Hin6I	GCGC	1 cut(s)	361
HinP1I	GCGC	1 cut(s)	361
HincII	GTYRAC	2 cut(s)	57, 789
HindII	GTYRAC	2 cut(s)	57, 789
HindIII	AAGCTT	1 cut(s)	16
HinfI	GANTC	5 cut(s)	27, 168, 461, 536, 721
HpaII	CCGG	2 cut(s)	409, 683
HphI	GGTGA	1 cut(s)	521
Hpy166II	GTNNAC	4 cut(s)	57, 346, 592, 789
Hpy188I	TCNGA	6 cut(s)	213, 327, 390, 433, 456, 666
Hpy188III	TCNNGA	4 cut(s)	31, 239, 635, 806
Hpy8I	GTNNAC	4 cut(s)	57, 346, 592, 789
HpyAV	CCTTC	3 cut(s)	385, 451, 588
HpyCH4III	ACNGT	2 cut(s)	323, 475
HpyCH4V	TGCA	4 cut(s)	10, 490, 506, 698
HpyF10VI	GCNNNNNNNGC	3 cut(s)	125, 308, 500
HpyF3I	CTNAG	4 cut(s)	19, 210, 326, 585
Hsp92II	CATG	1 cut(s)	386
HspAI	GCGC	1 cut(s)	361
KroI	GCCGGC	1 cut(s)	682
KroNI	GCCGGC	1 cut(s)	684
Kzo9I	GATC	5 cut(s)	206, 213, 451, 658, 768
LmnI	GCTCC	2 cut(s)	133, 139
Lsp1109I	GCAGC	5 cut(s)	49, 101, 106, 128, 490
MaeI	CTAG	3 cut(s)	123, 239, 832
MaeIII	GTNAC	1 cut(s)	509
MalI	GATC	5 cut(s)	208, 215, 453, 660, 770
MboI	GATC	5 cut(s)	206, 213, 451, 658, 768
MboII	GAAGA	7 cut(s)	604, 653, 679, 766, 769, 772, 794
MflI	RGATCY	2 cut(s)	206, 658
MhlI	GDGCHC	1 cut(s)	130
MluCI	AATT	3 cut(s)	146, 270, 425
MlyI	GAGTC	2 cut(s)	162, 730
MmeI	TCCRAC	2 cut(s)	184, 196
MroNI	GCCGGC	1 cut(s)	682
MseI	TTAA	5 cut(s)	144, 180, 273, 416, 603
MslI	CAYNNNNRTG	1 cut(s)	351
MspA1I	CMGCKG	1 cut(s)	119
MspI	CCGG	2 cut(s)	409, 683
MspR9I	CCNGG	1 cut(s)	571
Mva1269I	GAATGC	2 cut(s)	304, 729
MvaI	CCWGG	1 cut(s)	571
MwoI	GCNNNNNNNGC	3 cut(s)	125, 308, 500
NaeI	GCCGGC	1 cut(s)	684
NdeI	CATATG	1 cut(s)	515
NdeII	GATC	5 cut(s)	206, 213, 451, 658, 768
NgoMIV	GCCGGC	1 cut(s)	682
NlaIII	CATG	1 cut(s)	386
NlaIV	GGNNCC	1 cut(s)	129
NmuCI	GTSAC	1 cut(s)	509
NspI	RCATGY	1 cut(s)	386
NspV	TTCGAA	1 cut(s)	527
PaeI	GCATGC	1 cut(s)	386
PaqCI	CACCTGC	1 cut(s)	497
PceI	AGGCCT	1 cut(s)	254
PctI	GAATGC	2 cut(s)	304, 729
PdiI	GCCGGC	1 cut(s)	684
PfeI	GAWTC	3 cut(s)	27, 461, 536
PkrI	GCNGC	6 cut(s)	39, 88, 91, 118, 121, 505
PleI	GAGTC	2 cut(s)	162, 729
PpsI	GAGTC	2 cut(s)	162, 729
PshBI	ATTAAT	2 cut(s)	180, 273
PsiI	TTATAA	1 cut(s)	372
Psp6I	CCWGG	1 cut(s)	569
PspGI	CCWGG	1 cut(s)	569
PspN4I	GGNNCC	1 cut(s)	129
PspPI	GGNCC	3 cut(s)	197, 411, 780
PstI	CTGCAG	1 cut(s)	508
PstNI	CAGNNNCTG	1 cut(s)	695
PsuI	RGATCY	2 cut(s)	206, 658
PvuII	CAGCTG	1 cut(s)	119
RseI	CAYNNNNRTG	1 cut(s)	351
SalI	GTCGAC	1 cut(s)	55
SaqAI	TTAA	5 cut(s)	144, 180, 273, 416, 603
SatI	GCNGC	6 cut(s)	38, 87, 90, 117, 120, 504
Sau3AI	GATC	5 cut(s)	206, 213, 451, 658, 768
Sau96I	GGNCC	3 cut(s)	197, 411, 780
SchI	GAGTC	2 cut(s)	162, 730
ScrFI	CCNGG	1 cut(s)	571
SduI	GDGCHC	1 cut(s)	130
SfcI	CTRYAG	1 cut(s)	504
SfuI	TTCGAA	1 cut(s)	527
SinI	GGWCC	2 cut(s)	411, 780
SmiMI	CAYNNNNRTG	1 cut(s)	351
SphI	GCATGC	1 cut(s)	386
Sse9I	AATT	3 cut(s)	146, 270, 425
SseBI	AGGCCT	1 cut(s)	254
SsiI	CCGC	1 cut(s)	87
SspMI	CTAG	3 cut(s)	123, 239, 832
StuI	AGGCCT	1 cut(s)	254
StyD4I	CCNGG	1 cut(s)	569
TaaI	ACNGT	2 cut(s)	323, 475
TaqI	TCGA	2 cut(s)	56, 527
TasI	AATT	3 cut(s)	146, 270, 425
TauI	GCSGC	1 cut(s)	89
TfiI	GAWTC	3 cut(s)	27, 461, 536
Tru1I	TTAA	5 cut(s)	144, 180, 273, 416, 603
Tru9I	TTAA	5 cut(s)	144, 180, 273, 416, 603
TscAI	CASTG	1 cut(s)	700
TseFI	GTSAC	1 cut(s)	509
TseI	GCWGC	5 cut(s)	37, 89, 116, 119, 503
Tsp45I	GTSAC	1 cut(s)	509
TspDTI	ATGAA	3 cut(s)	291, 453, 692
TspGWI	ACGGA	2 cut(s)	205, 436
TspRI	CASTG	1 cut(s)	700
VpaK11BI	GGWCC	2 cut(s)	411, 780
VspI	ATTAAT	2 cut(s)	180, 273
XapI	RAATTY	2 cut(s)	146, 425
XbaI	TCTAGA	1 cut(s)	238
XceI	RCATGY	1 cut(s)	386
XmiI	GTMKAC	1 cut(s)	56
XspI	CTAG	3 cut(s)	123, 239, 832

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