Gene loci information

Transcript annotation

  • This transcript has been annotated as Fork head domain transcription factor slp2.

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_2 g4533 g4533.t1 TTS g4533.t1 3137724 3137724
chr_2 g4533 g4533.t1 isoform g4533.t1 3138410 3139188
chr_2 g4533 g4533.t1 exon g4533.t1.exon1 3138410 3138606
chr_2 g4533 g4533.t1 cds g4533.t1.CDS1 3138410 3138606
chr_2 g4533 g4533.t1 exon g4533.t1.exon2 3138678 3139188
chr_2 g4533 g4533.t1 cds g4533.t1.CDS2 3138678 3139188
chr_2 g4533 g4533.t1 TSS g4533.t1 NA NA

Sequences

>g4533.t1 Gene=g4533 Length=708
ATGGTTAAAGCTGAATATCCAACATTAAAGTTTAACGTGATGAATTTAAATAGTGAAACA
ATGTTTGCAATTTCTGCTCGTACACCGCTCAAATCGAGTTTTTCAATTAACTCAATTTTA
CCTGAAACAATGATGAAAACTTCACCATCGCAATCACCATCACCTTGTCACACACCAATC
GGGTCAGAACAGGAAGATTTGACTGATACAGAATCCGATTTGGATGTTACTGGAACACCA
CCACCACAAGACAACGATTGTGGTAATAATACAAACGACAGTATTGAAACATGCAGCAAT
AAGGATAAATCACTTGAAGACTGCGAAACTAATAGTAATAATGGCGATAAAAAGGATGGT
GAAAAGAAATCAAATGAAAAGCCAAGTTATTCTTATAATGCACTCATAATGCTTGCTATT
CGACCAAAAGTCCCTGAAAAAAGACTGACACTTAATGGCATTTATGAATATATCATGACT
AATTTTCCATATTATCGCATAATAAAACAAGGATGGCAAAATTCAATTCGTCATAATCTC
AGTCTTAATAAATGTTTTGTAAAAGTTCCACGTCATTATGATGATCCAGGCAAAGGAAAT
TACTGGATGCTTGATCCATCAGCTGAAGATGTTTTTTATTGGTGGTTCAACAGGCAAATT
AAGAAGAAGATCAACAGCCGCATCAAGATCTCGTTTGGCTGCATTTAA

>g4533.t1 Gene=g4533 Length=235
MVKAEYPTLKFNVMNLNSETMFAISARTPLKSSFSINSILPETMMKTSPSQSPSPCHTPI
GSEQEDLTDTESDLDVTGTPPPQDNDCGNNTNDSIETCSNKDKSLEDCETNSNNGDKKDG
EKKSNEKPSYSYNALIMLAIRPKVPEKRLTLNGIYEYIMTNFPYYRIIKQGWQNSIRHNL
SLNKCFVKVPRHYDDPGKGNYWMLDPSAEDVFYWWFNRQIKKKINSRIKISFGCI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g4533.t1 CDD cd00059 FH 127 205 4.64677E-48
7 g4533.t1 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 112 224 5.6E-40
11 g4533.t1 MobiDBLite mobidb-lite consensus disorder prediction 45 126 -
13 g4533.t1 MobiDBLite mobidb-lite consensus disorder prediction 45 65 -
12 g4533.t1 MobiDBLite mobidb-lite consensus disorder prediction 73 98 -
14 g4533.t1 MobiDBLite mobidb-lite consensus disorder prediction 99 126 -
2 g4533.t1 PANTHER PTHR46617 FORKHEAD BOX PROTEIN G1 28 212 2.1E-72
5 g4533.t1 PRINTS PR00053 Fork head domain signature 127 140 9.9E-22
4 g4533.t1 PRINTS PR00053 Fork head domain signature 149 166 9.9E-22
3 g4533.t1 PRINTS PR00053 Fork head domain signature 172 189 9.9E-22
1 g4533.t1 Pfam PF00250 Forkhead domain 126 212 6.8E-36
10 g4533.t1 ProSitePatterns PS00658 Fork head domain signature 2. 172 178 -
15 g4533.t1 ProSiteProfiles PS50039 Fork head domain profile. 127 222 34.644
9 g4533.t1 SMART SM00339 forkneu4 125 216 1.9E-49
6 g4533.t1 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 126 216 1.68E-35

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:0006355 regulation of transcription, DNA-templated BP
GO:0043565 sequence-specific DNA binding MF
GO:0003700 DNA-binding transcription factor activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed