Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0008441

Physical Location & Seq

Genomic Coordinates Reverse (-)

12629947 .. 12636829

Gene Structure 6883 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001236

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGTGCAGGCTTTTGTCTACTCAGTCTCCTCTACATCATTCTCCATGGAGGGATGTTAAGCAGGGATGTGATGGTGGTCGTGGAGCTTCTGCAGAACGACGTAGGCTTTTATGGTTCTTGATTTCAAATGCAAGGGTCCTAAGCTCTGTTGATGGCGGAGCTGATTGGGTTGAGGTAGCCGGCGACGATCCATGTGACTTCTCGTTGGGATCGCAGAGTGGTGATGCATTCGAAGTTGCACATATTGAAGGTCTGAATCCTCCTCCGGTGGATCTAGGCTTTGGGCCTCTAACAGGCATTGTGCTTGTTAGACAGAGCGCGACACTCAGACCCCAACAATCTCCTCTACAGCGTCGCCACCAAATTCCATCGAAGAAAATGGCGACGTTTGAGCTCTACAGGAGGTCAACGATCGGAATGTGTCTGACTGAGACTTTGGATGAGATGGTTCAGAACGGGACTCTCAGTCCTGAGCTTGCCATTCAGGTTCTGGTTCAGTTCGATAAGTCTATGACGGAAGCTCTGGAAACCCAAGTGAAGAGCAAGGTCTCCATCAAGGGACATCTGCACACCTACAGATTCTGCGACAATGTTTGGACCTTTATCTTACAGGATGCTGTGTTTAAGAATGAGGATACTCCGGAAAATGTTGGCCGCGTTAAAATAGTGGCATGTGACTCAAAGCTGCTCACACAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044093 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:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051090 GO:0051091 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0065009 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05203 map03022 map05203

Pfam Domains

Protein Families

TFIIA_gamma_C TFIIA_gamma_N

Protein Analysis

233

Amino Acids

25.75

Weight (kDa)

6.3

Isoelectric Point (pI)

56.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIA_gamma_N	PF02268	130 - 175	8.4e-22	Transcription initiation factor IIA, gamma subunit, helical domain
TFIIA_gamma_C	PF02751	186 - 227	1.9e-21	Transcription initiation factor IIA, gamma subunit

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: OG0008441)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24440 AT4G24440
fragaria_vesca	FvH4_5g34180
malus_domestica	MD08G1203900.v1.1
prunus_persica	Prupe.1G536300_v2.0.a1
pyrus_communis	pycom08g17590
rosa_chinensis	RchiOBHm_Chr5g0012851 RchiOBHm_Chr7g0233761
rosa_laevigata	RLG00000001236 RLG00000031961
rosa_multiflora	Rmu_sc0002365.1_g000032
rosa_roxburghii	Rroxscaffold_1G00063750 Rroxscaffold_3G00227010
rosa_rugosa	Rorug07G0282500 Rorug07G0282600
rosa_samantha	Rh5AG098600 Rh5CG107500 Rh7BG128400 Rh7BG411500
rosa_wichuraiana	Rw1G012030 Rw5G008620 Rw7G028720 Rw7G036250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	17
AccII	CGCG	2 cut(s)	320, 657
AccIII	TCCGGA	1 cut(s)	640
AciI	CCGC	2 cut(s)	156, 655
AclWI	GGATC	3 cut(s)	182, 217, 279
AcoI	YGGCCR	1 cut(s)	652
AcsI	RAATTY	1 cut(s)	363
AfiI	CCNNNNNNNGG	1 cut(s)	293
AgsI	TTSAA	2 cut(s)	126, 248
AhdI	GACNNNNNGTC	1 cut(s)	465
AluBI	AGCT	7 cut(s)	86, 144, 161, 394, 475, 521, 685
AluI	AGCT	7 cut(s)	86, 144, 161, 394, 475, 521, 685
Alw21I	GWGCWC	1 cut(s)	396
Alw26I	GTCTC	3 cut(s)	30, 425, 553
AlwI	GGATC	3 cut(s)	182, 217, 279
AlwNI	CAGNNNCTG	2 cut(s)	490, 582
Aor13HI	TCCGGA	1 cut(s)	640
AoxI	GGCC	2 cut(s)	284, 652
ApeKI	GCWGC	1 cut(s)	685
ApoI	RAATTY	1 cut(s)	363
ArsI	GACNNNNNNTTYG	2 cut(s)	418, 450
AspLEI	GCGC	1 cut(s)	320
AspS9I	GGNCC	3 cut(s)	136, 284, 597
AsuHPI	GGTGA	1 cut(s)	233
AsuII	TTCGAA	1 cut(s)	231
AvaII	GGWCC	2 cut(s)	136, 597
BanII	GRGCYC	1 cut(s)	396
Bbv12I	GWGCWC	1 cut(s)	396
BbvI	GCAGC	1 cut(s)	672
BccI	CCATC	5 cut(s)	65, 146, 376, 439, 560
BciVI	GTATCC	1 cut(s)	628
BcoDI	GTCTC	3 cut(s)	30, 425, 553
BfaI	CTAG	1 cut(s)	275
BfmI	CTRYAG	4 cut(s)	90, 347, 397, 574
BfuI	GTATCC	1 cut(s)	628
BisI	GCNGC	2 cut(s)	655, 686
BlsI	GCNGC	2 cut(s)	656, 687
Bme18I	GGWCC	2 cut(s)	136, 597
BmeRI	GACNNNNNGTC	1 cut(s)	465
BmgT120I	GGNCC	3 cut(s)	136, 284, 597
BmiI	GGNNCC	1 cut(s)	137
BmsI	GCATC	2 cut(s)	214, 604
Bpu10I	CCTNAGC	2 cut(s)	140, 471
Bpu14I	TTCGAA	1 cut(s)	231
BsaI	GGTCTC	1 cut(s)	553
BsaJI	CCNNGG	1 cut(s)	44
BsaWI	WCCGGW	2 cut(s)	265, 640
BsaXI	ACNNNNNCTCC	2 cut(s)	10, 40
Bsc4I	CCNNNNNNNGG	1 cut(s)	293
Bse118I	RCCGGY	1 cut(s)	179
BseAI	TCCGGA	1 cut(s)	640
BseDI	CCNNGG	1 cut(s)	44
BseGI	GGATG	4 cut(s)	58, 71, 445, 619
BseLI	CCNNNNNNNGG	1 cut(s)	293
BseMII	CTCAG	5 cut(s)	35, 340, 420, 462, 478
BseRI	GAGGAG	3 cut(s)	18, 252, 333
BseXI	GCAGC	1 cut(s)	672
BsgI	GTGCAG	2 cut(s)	25, 551
Bsh1236I	CGCG	2 cut(s)	320, 657
Bsh1285I	CGRYCG	1 cut(s)	414
BshFI	GGCC	2 cut(s)	286, 654
BsiEI	CGRYCG	1 cut(s)	414
BsiHKAI	GWGCWC	1 cut(s)	396
BsiSI	CCGG	3 cut(s)	180, 266, 641
BslFI	GGGAC	2 cut(s)	472, 573
BslI	CCNNNNNNNGG	1 cut(s)	293
BsmAI	GTCTC	3 cut(s)	30, 425, 553
BsmFI	GGGAC	2 cut(s)	472, 573
BsmI	GAATGC	1 cut(s)	227
BsnI	GGCC	2 cut(s)	286, 654
Bso31I	GGTCTC	1 cut(s)	553
Bsp119I	TTCGAA	1 cut(s)	231
Bsp1286I	GDGCHC	1 cut(s)	396
Bsp13I	TCCGGA	1 cut(s)	640
Bsp143I	GATC	4 cut(s)	187, 209, 271, 411
Bsp19I	CCATGG	1 cut(s)	44
BspACI	CCGC	2 cut(s)	156, 655
BspANI	GGCC	2 cut(s)	286, 654
BspCNI	CTCAG	5 cut(s)	34, 339, 421, 463, 477
BspEI	TCCGGA	1 cut(s)	640
BspFNI	CGCG	2 cut(s)	320, 657
BspLI	GGNNCC	1 cut(s)	137
BspMAI	CTGCAG	1 cut(s)	94
BspPI	GGATC	3 cut(s)	182, 217, 279
BspQI	GCTCTTC	1 cut(s)	533
BspT104I	TTCGAA	1 cut(s)	231
BspTNI	GGTCTC	1 cut(s)	553
BsrFI	RCCGGY	1 cut(s)	179
BssAI	RCCGGY	1 cut(s)	179
BssECI	CCNNGG	1 cut(s)	44
BssMI	GATC	4 cut(s)	187, 209, 271, 411
BssT1I	CCWWGG	1 cut(s)	44
Bst6I	CTCTTC	1 cut(s)	533
BstBI	TTCGAA	1 cut(s)	231
BstC8I	GCNNGC	3 cut(s)	8, 181, 477
BstDEI	CTNAG	6 cut(s)	21, 140, 326, 429, 464, 471
BstDSI	CCRYGG	1 cut(s)	44
BstENI	CCTNNNNNAGG	1 cut(s)	291
BstF5I	GGATG	4 cut(s)	58, 71, 445, 619
BstFNI	CGCG	2 cut(s)	320, 657
BstHHI	GCGC	1 cut(s)	320
BstKTI	GATC	4 cut(s)	190, 212, 274, 414
BstMAI	GTCTC	3 cut(s)	30, 425, 553
BstMBI	GATC	4 cut(s)	187, 209, 271, 411
BstMCI	CGRYCG	1 cut(s)	414
BstNSI	RCATGY	1 cut(s)	675
BstSFI	CTRYAG	4 cut(s)	90, 347, 397, 574
BstUI	CGCG	2 cut(s)	320, 657
BstV1I	GCAGC	1 cut(s)	672
BstX2I	RGATCY	1 cut(s)	271
BstYI	RGATCY	1 cut(s)	271
BsuI	GTATCC	1 cut(s)	628
BsuRI	GGCC	2 cut(s)	286, 654
BtgI	CCRYGG	1 cut(s)	44
BtsCI	GGATG	4 cut(s)	58, 71, 445, 619
Cac8I	GCNNGC	3 cut(s)	8, 181, 477
CaiI	CAGNNNCTG	2 cut(s)	490, 582
CfoI	GCGC	1 cut(s)	320
Cfr10I	RCCGGY	1 cut(s)	179
Cfr13I	GGNCC	3 cut(s)	136, 284, 597
CseI	GACGC	1 cut(s)	341
CviAII	CATG	3 cut(s)	45, 192, 672
DdeI	CTNAG	6 cut(s)	21, 140, 326, 429, 464, 471
DpnI	GATC	4 cut(s)	189, 211, 273, 413
DpnII	GATC	4 cut(s)	187, 209, 271, 411
DriI	GACNNNNNGTC	1 cut(s)	465
EaeI	YGGCCR	1 cut(s)	652
Eam1104I	CTCTTC	1 cut(s)	533
Eam1105I	GACNNNNNGTC	1 cut(s)	465
EarI	CTCTTC	1 cut(s)	533
EciI	GGCGGA	1 cut(s)	171
Ecl136II	GAGCTC	1 cut(s)	394
Eco130I	CCWWGG	1 cut(s)	44
Eco24I	GRGCYC	1 cut(s)	396
Eco31I	GGTCTC	1 cut(s)	553
Eco47I	GGWCC	2 cut(s)	136, 597
Eco53kI	GAGCTC	1 cut(s)	394
EcoICRI	GAGCTC	1 cut(s)	394
EcoNI	CCTNNNNNAGG	1 cut(s)	291
EcoO109I	RGGNCCY	1 cut(s)	136
EcoT14I	CCWWGG	1 cut(s)	44
EcoT22I	ATGCAT	1 cut(s)	229
EcoT38I	GRGCYC	1 cut(s)	396
ErhI	CCWWGG	1 cut(s)	44
FaeI	CATG	3 cut(s)	48, 195, 675
FaiI	YATR	6 cut(s)	46, 112, 193, 243, 512, 673
FaqI	GGGAC	2 cut(s)	472, 573
FatI	CATG	3 cut(s)	44, 191, 671
FblI	GTMKAC	1 cut(s)	17
Fnu4HI	GCNGC	2 cut(s)	655, 686
FokI	GGATG	4 cut(s)	65, 78, 452, 626
FriOI	GRGCYC	1 cut(s)	396
Fsp4HI	GCNGC	2 cut(s)	655, 686
FspBI	CTAG	1 cut(s)	275
GlaI	GCGC	1 cut(s)	319
GluI	GCNGC	2 cut(s)	655, 686
HaeIII	GGCC	2 cut(s)	286, 654
HapII	CCGG	3 cut(s)	180, 266, 641
HgaI	GACGC	1 cut(s)	341
HhaI	GCGC	1 cut(s)	320
Hin1II	CATG	3 cut(s)	48, 195, 675
Hin6I	GCGC	1 cut(s)	318
HinP1I	GCGC	1 cut(s)	318
HincII	GTYRAC	1 cut(s)	408
HindII	GTYRAC	1 cut(s)	408
HinfI	GANTC	4 cut(s)	256, 460, 579, 677
HpaII	CCGG	3 cut(s)	180, 266, 641
HphI	GGTGA	1 cut(s)	233
Hpy166II	GTNNAC	2 cut(s)	18, 408
Hpy188I	TCNGA	5 cut(s)	255, 329, 416, 426, 453
Hpy188III	TCNNGA	4 cut(s)	118, 470, 524, 641
Hpy8I	GTNNAC	2 cut(s)	18, 408
Hpy99I	CGWCG	4 cut(s)	102, 188, 357, 388
HpyAV	CCTTC	1 cut(s)	242
HpyCH4IV	ACGT	2 cut(s)	100, 386
HpyCH4V	TGCA	6 cut(s)	6, 92, 131, 227, 239, 568
HpyF3I	CTNAG	6 cut(s)	21, 140, 326, 429, 464, 471
HpySE526I	ACGT	2 cut(s)	100, 386
Hsp92II	CATG	3 cut(s)	48, 195, 675
HspAI	GCGC	1 cut(s)	318
Kpn2I	TCCGGA	1 cut(s)	640
KroI	GCCGGC	1 cut(s)	179
KroNI	GCCGGC	1 cut(s)	181
Kzo9I	GATC	4 cut(s)	187, 209, 271, 411
LguI	GCTCTTC	1 cut(s)	533
LmnI	GCTCC	2 cut(s)	83, 158
Lsp1109I	GCAGC	1 cut(s)	672
LweI	GCATC	2 cut(s)	214, 604
MaeI	CTAG	1 cut(s)	275
MaeII	ACGT	2 cut(s)	100, 386
MaeIII	GTNAC	2 cut(s)	194, 674
MalI	GATC	4 cut(s)	189, 211, 273, 413
MboI	GATC	4 cut(s)	187, 209, 271, 411
MboII	GAAGA	2 cut(s)	385, 550
MflI	RGATCY	1 cut(s)	271
MhlI	GDGCHC	1 cut(s)	396
MluCI	AATT	1 cut(s)	363
MlyI	GAGTC	2 cut(s)	454, 671
MnlI	CCTC	9 cut(s)	39, 42, 166, 270, 273, 297, 354, 396, 625
Mph1103I	ATGCAT	1 cut(s)	229
MroI	TCCGGA	1 cut(s)	640
MroNI	GCCGGC	1 cut(s)	179
MseI	TTAA	3 cut(s)	57, 624, 660
MspI	CCGG	3 cut(s)	180, 266, 641
Mva1269I	GAATGC	1 cut(s)	227
MvnI	CGCG	2 cut(s)	320, 657
NaeI	GCCGGC	1 cut(s)	181
NcoI	CCATGG	1 cut(s)	44
NdeII	GATC	4 cut(s)	187, 209, 271, 411
NgoMIV	GCCGGC	1 cut(s)	179
NlaIII	CATG	3 cut(s)	48, 195, 675
NlaIV	GGNNCC	1 cut(s)	137
NmuCI	GTSAC	2 cut(s)	194, 674
NsiI	ATGCAT	1 cut(s)	229
NspI	RCATGY	1 cut(s)	675
NspV	TTCGAA	1 cut(s)	231
PciSI	GCTCTTC	1 cut(s)	533
PctI	GAATGC	1 cut(s)	227
PdiI	GCCGGC	1 cut(s)	181
PfeI	GAWTC	2 cut(s)	256, 579
PkrI	GCNGC	2 cut(s)	656, 687
Ple19I	CGATCG	1 cut(s)	414
PleI	GAGTC	2 cut(s)	454, 671
PpsI	GAGTC	2 cut(s)	454, 671
PpuMI	RGGWCCY	1 cut(s)	136
Psp124BI	GAGCTC	1 cut(s)	396
Psp5II	RGGWCCY	1 cut(s)	136
PspN4I	GGNNCC	1 cut(s)	137
PspPI	GGNCC	3 cut(s)	136, 284, 597
PspPPI	RGGWCCY	1 cut(s)	136
PstI	CTGCAG	1 cut(s)	94
PstNI	CAGNNNCTG	2 cut(s)	490, 582
PsuI	RGATCY	1 cut(s)	271
PvuI	CGATCG	1 cut(s)	414
SacI	GAGCTC	1 cut(s)	396
SapI	GCTCTTC	1 cut(s)	533
SaqAI	TTAA	3 cut(s)	57, 624, 660
SatI	GCNGC	2 cut(s)	655, 686
Sau3AI	GATC	4 cut(s)	187, 209, 271, 411
Sau96I	GGNCC	3 cut(s)	136, 284, 597
SchI	GAGTC	2 cut(s)	454, 671
SduI	GDGCHC	1 cut(s)	396
SfaNI	GCATC	2 cut(s)	214, 604
SfcI	CTRYAG	4 cut(s)	90, 347, 397, 574
SfuI	TTCGAA	1 cut(s)	231
SinI	GGWCC	2 cut(s)	136, 597
Sse9I	AATT	1 cut(s)	363
SsiI	CCGC	2 cut(s)	156, 655
SspMI	CTAG	1 cut(s)	275
SstI	GAGCTC	1 cut(s)	396
StyI	CCWWGG	1 cut(s)	44
TaiI	ACGT	2 cut(s)	103, 389
TaqI	TCGA	3 cut(s)	231, 371, 501
TasI	AATT	1 cut(s)	363
TauI	GCSGC	1 cut(s)	657
TfiI	GAWTC	2 cut(s)	256, 579
Tru1I	TTAA	3 cut(s)	57, 624, 660
Tru9I	TTAA	3 cut(s)	57, 624, 660
TseFI	GTSAC	2 cut(s)	194, 674
TseI	GCWGC	1 cut(s)	685
Tsp45I	GTSAC	2 cut(s)	194, 674
TspGWI	ACGGA	1 cut(s)	530
VpaK11BI	GGWCC	2 cut(s)	136, 597
XagI	CCTNNNNNAGG	1 cut(s)	291
XapI	RAATTY	1 cut(s)	363
XceI	RCATGY	1 cut(s)	675
XcmI	CCANNNNNNNNNTGG	1 cut(s)	487
XmiI	GTMKAC	1 cut(s)	17
XspI	CTAG	1 cut(s)	275
Zsp2I	ATGCAT	1 cut(s)	229

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