Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Folliculin.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_4 g15778 g15778.t1 isoform g15778.t1 6765782 6767200
chr_4 g15778 g15778.t1 exon g15778.t1.exon1 6765782 6766078
chr_4 g15778 g15778.t1 cds g15778.t1.CDS1 6765782 6766078
chr_4 g15778 g15778.t1 exon g15778.t1.exon2 6766139 6767200
chr_4 g15778 g15778.t1 cds g15778.t1.CDS2 6766139 6767200
chr_4 g15778 g15778.t1 TSS g15778.t1 NA NA
chr_4 g15778 g15778.t1 TTS g15778.t1 NA NA

Sequences

>g15778.t1 Gene=g15778 Length=1359
ATGAACGCAATTATAAATCTTAATCATTTTTGTGAAGTTCATGGACCACAATCGATCTTT
TCAACACAAACAATTCGGGACAAATCGTTAATCCAAAAAATTTCATTAAATTCAAATAAT
AATAATGGAACTTCGCAAAGTCAAAAAGTAGTCTGTGAAGGATGCTCGTCGATTGGTGAT
AAAATGGTTTTTGTCAGTGAAGAGAATTCAATATTTTTTGTAAGTAGTGAAAAAAGCATT
TTTGGAAAAGATCATCAAGGATCATTGAAGCAAACTGCACTCAAATCTTTATGTGAAATA
ACAGCAAATAATCAAGAAAATCTTGTATTTTTTGGTGATGCTCGTCTTAATTCTCTTTGT
TATTCCTTCAAAGTAAAAGATTCTTTTGCTCGTGGATTTGAGACTCTTTTTTCAATTACA
ATTGTTATGAAAGATAAAATGTTTCTTCTCAATACTCAACCATTTCTTGCCGATAATATT
AAAGAAATAGCAAAAAGAATGCAAGATAGTGCTTTGAAAGTTTATGAATCAGAACAAAAG
CAATTTTCACAACGTGCTGAACGACTTAATAGTGGAAAAATGTCAGATTTGCAACCGAGA
TCATTGAGAGAGTTAGTTGGAGAACAAAATATTTTTGCACATCTTCATTCGCTATTTTCA
TGGATACTTTATGCAGGTTCAAGGTATTTCACTGAAGTTTTAACTCTTGGTAGTTCAACA
TTGCCAGCATTTGCAAGAAAAGAAGCCGAAGGTTTTGCTTTTATTAGCATTGACAAAGAA
GAATTTTTAATGCAAAATTTCAGTGATAATTCAGAATACGACAGCAGTTATAGTTTGAGA
CATCTAAAAGAACAAGTAACAGTACATCAATTTAATCAACTTATTTATTGTAGTCTTGTT
GGTATTCAAATTGTCATTCGTGGTTATTACATGGAATTTAATAATTATTTCAAAGAATTT
TTGCCTCAAGCTTTTCATCGATTTATTTTTGAATCAAGCAAATATGTTTCAGCTCAAAAA
TGTAGAATTTTAACTTTGCCAGCTGATGCTACAATTCCATCACATAATAACATTTGCAGA
ATTGATTTTATTGATGACCATCAAATTTATATCAAATGCAATGTTGATATTCCAAGCAAA
CCACCAGCATTGATGACAAAAATTTTAAATGCTGTCGATGAAAAACTTTTCTCGAATCAC
ACAATGTATAAATTTGTGCAAGCATTAGTTGAAGAGTGGAAAAATAAAATAATTTGTTTG
TCACATCAGCATGATCATGATGTATCGAAGCTGAAGAAAGTGTTGGGAATTCAACAAAAT
GATGAACTGTTGGTTAGCTATTGGTTGAGTGTTCTCTAG

>g15778.t1 Gene=g15778 Length=452
MNAIINLNHFCEVHGPQSIFSTQTIRDKSLIQKISLNSNNNNGTSQSQKVVCEGCSSIGD
KMVFVSEENSIFFVSSEKSIFGKDHQGSLKQTALKSLCEITANNQENLVFFGDARLNSLC
YSFKVKDSFARGFETLFSITIVMKDKMFLLNTQPFLADNIKEIAKRMQDSALKVYESEQK
QFSQRAERLNSGKMSDLQPRSLRELVGEQNIFAHLHSLFSWILYAGSRYFTEVLTLGSST
LPAFARKEAEGFAFISIDKEEFLMQNFSDNSEYDSSYSLRHLKEQVTVHQFNQLIYCSLV
GIQIVIRGYYMEFNNYFKEFLPQAFHRFIFESSKYVSAQKCRILTLPADATIPSHNNICR
IDFIDDHQIYIKCNVDIPSKPPALMTKILNAVDEKLFSNHTMYKFVQALVEEWKNKIICL
SHQHDHDVSKLKKVLGIQQNDELLVSYWLSVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g15778.t1 Gene3D G3DSA:3.40.50.12430 - 274 379 0
3 g15778.t1 PANTHER PTHR31441 FOLLICULIN FAMILY MEMBER 1 450 0
1 g15778.t1 Pfam PF11704 Vesicle coat protein involved in Golgi to plasma membrane transport 74 224 0
2 g15778.t1 Pfam PF16692 Folliculin C-terminal domain 278 355 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005085 guanyl-nucleotide exchange factor activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values