Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0000930

Physical Location & Seq

Genomic Coordinates Forward (+)

835612 .. 840595

Gene Structure 4984 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000022465

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGGGGGAACAAGGTGGATTGGAAGAGAGCCAACCCGTCGATCTTTCCAAGCACCCATCTGGCATTGTTCCCACTCTTCAGAATATTGTATCGACAGTTAATTTGGATTGCAAGTTGGATCTTAAGCAAATTGCGTTGCAAGCTCGAAATGCAGAATACAATCCCAAGCGTTTTGCTGCTGTCATAATGAGAATAAGGGAACCAAAAACTACAGCTTTGATTTTTGCCTCTGGGAAGATGGTATGCACAGGTGCCAAAAGTGAACAGCAATCAAAGCTGGCAGCAAGGAAGTATGCTCGAATTATCCAGAAGCTTGGTTTTCCCGCTAAGTTTAAGGATTTTAAGATTCAAAACATTGTTGCCTCATGTGATGTTAAATTCCCAATCAGACTTGAAGGTCTTGCATACTCCCATGGTGCCTTTTCAAGTTATGAGCCAGAACTTTTTCCTGGACTAATATATCGCATGAAGCAGCCCAAGATTGTTCTTCTCATATTTGTGTCGGGGAAAATTGTTATAACGGGTGCAAAGGTGATTGGATGCTTTTCTTGTGCATTTCCTCCTCTTCCATATCTTTTCTCCTGCTTTAGCAGATGGGGCATTTGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03022 ko05016 ko05165 ko05166 ko05168 ko05169 ko05203 map03022 map05016 map05165 map05166 map05168 map05169 map05203

Pfam Domains

Protein Families

TBP

Protein Analysis

203

Amino Acids

22.37

Weight (kDa)

9.57

Isoelectric Point (pI)

46.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TBP	PF00352	24 - 105	2e-34	Transcription factor TFIID (or TATA-binding protein, TBP)
TBP	PF00352	113 - 177	6e-28	Transcription factor TFIID (or TATA-binding protein, TBP)

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)

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Publication-ready

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Orthologous Genes (Group: OG0000930)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55520 AT1G55520 AT1G55520 AT1G55520 AT3G13445 AT3G13445
fragaria_vesca	FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_1g28010 FvH4_3g32401 FvH4_3g32450 FvH4_3g45850 FvH4_3g45850 FvH4_4g21060 FvH4_6g12030
malus_domestica	MD03G1002100.v1.1 MD11G1002100.v1.1 MD12G1002700.v1.1 MD12G1176800.v1.1 MD14G1002000.v1.1
prunus_persica	Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.6G001900_v2.0.a1 Prupe.7G002800_v2.0.a1 Prupe.7G002800_v2.0.a1
pyrus_communis	pycom11g00190 pycom12g16680
rosa_chinensis	RchiOBHm_Chr3g0463861 RchiOBHm_Chr3g0497421 RchiOBHm_Chr5g0083961
rosa_laevigata	RLG00000022465 RLG00000024749 RLG00000035285 RLG00000037068
rosa_multiflora	Rmu_sc0004796.1_g000003
rosa_roxburghii	Rroxscaffold_1G00000660 Rroxscaffold_6G00388060 Rroxscaffold_6G00416240
rosa_rugosa	Rorug03G0068600 Rorug03G0292900 Rorug05G0488000 Rorug05G0488100
rosa_samantha	Rh3AG125700 Rh3AG336400 Rh3BG129800 Rh3BG374500 Rh3CG132300 Rh3CG370600 Rh3DG130900 Rh3DG371500 Rh3DG372800 Rh5AG540800 Rh5BG565800 Rh5CG587700 Rh5DG574400
rosa_wichuraiana	Rw3G010610 Rw3G029570 Rw5G050290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	518
AasI	GACNNNNNNGTC	1 cut(s)	396
AccB1I	GGYRCC	2 cut(s)	251, 416
AciI	CCGC	1 cut(s)	324
AclWI	GGATC	1 cut(s)	126
AcsI	RAATTY	1 cut(s)	377
AcuI	CTGAAG	1 cut(s)	62
AflII	CTTAAG	1 cut(s)	122
AgsI	TTSAA	3 cut(s)	350, 395, 426
AjnI	CCWGG	1 cut(s)	448
AluBI	AGCT	4 cut(s)	143, 215, 277, 313
AluI	AGCT	4 cut(s)	143, 215, 277, 313
AlwI	GGATC	1 cut(s)	126
ApeKI	GCWGC	3 cut(s)	176, 281, 472
ApoI	RAATTY	1 cut(s)	377
ArsI	GACNNNNNNTTYG	2 cut(s)	85, 117
Asp700I	GAANNNNTTC	1 cut(s)	444
AsuHPI	GGTGA	1 cut(s)	544
BanI	GGYRCC	2 cut(s)	251, 416
BbvI	GCAGC	3 cut(s)	163, 293, 484
BccI	CCATC	3 cut(s)	64, 232, 588
BciT130I	CCWGG	1 cut(s)	450
BfmI	CTRYAG	1 cut(s)	210
BfrI	CTTAAG	1 cut(s)	122
BisI	GCNGC	3 cut(s)	177, 282, 473
BlsI	GCNGC	3 cut(s)	178, 283, 474
Bme1390I	CCNGG	1 cut(s)	450
BmiI	GGNNCC	3 cut(s)	201, 253, 418
BmrFI	CCNGG	1 cut(s)	450
BmsI	GCATC	1 cut(s)	530
BsaJI	CCNNGG	1 cut(s)	412
BseBI	CCWGG	1 cut(s)	450
BseDI	CCNNGG	1 cut(s)	412
BseGI	GGATG	1 cut(s)	545
BseRI	GAGGAG	1 cut(s)	552
BseXI	GCAGC	3 cut(s)	163, 293, 484
BshNI	GGYRCC	2 cut(s)	251, 416
Bsp143I	GATC	2 cut(s)	40, 118
Bsp19I	CCATGG	1 cut(s)	412
BspACI	CCGC	1 cut(s)	324
BspLI	GGNNCC	3 cut(s)	201, 253, 418
BspPI	GGATC	1 cut(s)	126
BspT107I	GGYRCC	2 cut(s)	251, 416
BspTI	CTTAAG	1 cut(s)	122
BssECI	CCNNGG	1 cut(s)	412
BssMI	GATC	2 cut(s)	40, 118
BssT1I	CCWWGG	1 cut(s)	412
Bst2UI	CCWGG	1 cut(s)	450
Bst4CI	ACNGT	1 cut(s)	97
Bst6I	CTCTTC	3 cut(s)	18, 81, 570
BstAFI	CTTAAG	1 cut(s)	122
BstC8I	GCNNGC	2 cut(s)	141, 279
BstDEI	CTNAG	1 cut(s)	327
BstDSI	CCRYGG	1 cut(s)	412
BstF5I	GGATG	1 cut(s)	545
BstKTI	GATC	2 cut(s)	43, 121
BstMBI	GATC	2 cut(s)	40, 118
BstMWI	GCNNNNNNNGC	4 cut(s)	140, 149, 274, 597
BstNI	CCWGG	1 cut(s)	450
BstSCI	CCNGG	1 cut(s)	448
BstSFI	CTRYAG	1 cut(s)	210
BstV1I	GCAGC	3 cut(s)	163, 293, 484
BstX2I	RGATCY	1 cut(s)	118
BstXI	CCANNNNNNTGG	1 cut(s)	314
BstYI	RGATCY	1 cut(s)	118
BtgI	CCRYGG	1 cut(s)	412
BtsCI	GGATG	1 cut(s)	545
Cac8I	GCNNGC	2 cut(s)	141, 279
CviAII	CATG	3 cut(s)	366, 413, 466
CviJI	RGCY	7 cut(s)	30, 143, 215, 277, 313, 436, 475
CviKI_1	RGCY	7 cut(s)	30, 143, 215, 277, 313, 436, 475
DdeI	CTNAG	1 cut(s)	327
DpnI	GATC	2 cut(s)	42, 120
DpnII	GATC	2 cut(s)	40, 118
DrdI	GACNNNNNNGTC	1 cut(s)	396
DseDI	GACNNNNNNGTC	1 cut(s)	396
Eam1104I	CTCTTC	3 cut(s)	18, 81, 570
EarI	CTCTTC	3 cut(s)	18, 81, 570
Eco130I	CCWWGG	1 cut(s)	412
Eco57I	CTGAAG	1 cut(s)	62
EcoRII	CCWGG	1 cut(s)	448
EcoT14I	CCWWGG	1 cut(s)	412
ErhI	CCWWGG	1 cut(s)	412
FaeI	CATG	3 cut(s)	369, 416, 469
FatI	CATG	3 cut(s)	365, 412, 465
FauI	CCCGC	1 cut(s)	331
Fnu4HI	GCNGC	3 cut(s)	177, 282, 473
FokI	GGATG	1 cut(s)	552
Fsp4HI	GCNGC	3 cut(s)	177, 282, 473
GluI	GCNGC	3 cut(s)	177, 282, 473
Hin1II	CATG	3 cut(s)	369, 416, 469
HindIII	AAGCTT	1 cut(s)	311
HinfI	GANTC	1 cut(s)	346
HphI	GGTGA	1 cut(s)	544
Hpy166II	GTNNAC	1 cut(s)	263
Hpy188I	TCNGA	2 cut(s)	81, 389
Hpy188III	TCNNGA	1 cut(s)	307
Hpy8I	GTNNAC	1 cut(s)	263
Hpy99I	CGWCG	1 cut(s)	41
HpyAV	CCTTC	1 cut(s)	389
HpyCH4III	ACNGT	1 cut(s)	97
HpyCH4V	TGCA	7 cut(s)	111, 139, 152, 246, 404, 527, 554
HpyF10VI	GCNNNNNNNGC	4 cut(s)	140, 149, 274, 597
HpyF3I	CTNAG	1 cut(s)	327
Hsp92II	CATG	3 cut(s)	369, 416, 469
Kzo9I	GATC	2 cut(s)	40, 118
LpnPI	CCDG	9 cut(s)	45, 216, 234, 263, 320, 435, 450, 462, 595
Lsp1109I	GCAGC	3 cut(s)	163, 293, 484
LweI	GCATC	1 cut(s)	530
MalI	GATC	2 cut(s)	42, 120
MboI	GATC	2 cut(s)	40, 118
MboII	GAAGA	5 cut(s)	35, 68, 247, 479, 557
MflI	RGATCY	1 cut(s)	118
MluCI	AATT	5 cut(s)	100, 129, 300, 377, 510
MmeI	TCCRAC	1 cut(s)	96
MnlI	CCTC	4 cut(s)	238, 373, 570, 573
MroXI	GAANNNNTTC	1 cut(s)	444
MseI	TTAA	6 cut(s)	99, 123, 333, 342, 375, 607
MslI	CAYNNNNRTG	1 cut(s)	497
MspCI	CTTAAG	1 cut(s)	122
MspR9I	CCNGG	1 cut(s)	450
MvaI	CCWGG	1 cut(s)	450
MwoI	GCNNNNNNNGC	4 cut(s)	140, 149, 274, 597
NcoI	CCATGG	1 cut(s)	412
NdeII	GATC	2 cut(s)	40, 118
NlaIII	CATG	3 cut(s)	369, 416, 469
NlaIV	GGNNCC	3 cut(s)	201, 253, 418
PdmI	GAANNNNTTC	1 cut(s)	444
PfeI	GAWTC	1 cut(s)	346
PfoI	TCCNGGA	1 cut(s)	448
PkrI	GCNGC	3 cut(s)	178, 283, 474
PsiI	TTATAA	1 cut(s)	518
Psp6I	CCWGG	1 cut(s)	448
PspGI	CCWGG	1 cut(s)	448
PspN4I	GGNNCC	3 cut(s)	201, 253, 418
PsuI	RGATCY	1 cut(s)	118
RseI	CAYNNNNRTG	1 cut(s)	497
SaqAI	TTAA	6 cut(s)	99, 123, 333, 342, 375, 607
SatI	GCNGC	3 cut(s)	177, 282, 473
Sau3AI	GATC	2 cut(s)	40, 118
ScrFI	CCNGG	1 cut(s)	450
SetI	ASST	8 cut(s)	16, 145, 217, 253, 279, 315, 400, 534
SfaNI	GCATC	1 cut(s)	530
SfcI	CTRYAG	1 cut(s)	210
SmiMI	CAYNNNNRTG	1 cut(s)	497
SmlI	CTYRAG	1 cut(s)	122
SmoI	CTYRAG	1 cut(s)	122
Sse9I	AATT	5 cut(s)	100, 129, 300, 377, 510
SsiI	CCGC	1 cut(s)	324
SspI	AATATT	1 cut(s)	85
StyD4I	CCNGG	1 cut(s)	448
StyI	CCWWGG	1 cut(s)	412
TaaI	ACNGT	1 cut(s)	97
TaqI	TCGA	4 cut(s)	39, 92, 145, 298
TasI	AATT	5 cut(s)	100, 129, 300, 377, 510
TfiI	GAWTC	1 cut(s)	346
Tru1I	TTAA	6 cut(s)	99, 123, 333, 342, 375, 607
Tru9I	TTAA	6 cut(s)	99, 123, 333, 342, 375, 607
TseI	GCWGC	3 cut(s)	176, 281, 472
TspDTI	ATGAA	1 cut(s)	482
Vha464I	CTTAAG	1 cut(s)	122
XapI	RAATTY	1 cut(s)	377
XmnI	GAANNNNTTC	1 cut(s)	444

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