Gene loci information

Transcript annotation

  • This transcript has been annotated as Modifier of mdg4.

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_3 g2505 g2505.t5 isoform g2505.t5 18325445 18326531
chr_3 g2505 g2505.t5 exon g2505.t5.exon1 18325445 18326051
chr_3 g2505 g2505.t5 cds g2505.t5.CDS1 18325446 18326051
chr_3 g2505 g2505.t5 exon g2505.t5.exon2 18326119 18326531
chr_3 g2505 g2505.t5 cds g2505.t5.CDS2 18326119 18326475
chr_3 g2505 g2505.t5 TSS g2505.t5 18327308 18327308
chr_3 g2505 g2505.t5 TTS g2505.t5 NA NA

Sequences

>g2505.t5 Gene=g2505 Length=1020
AGAACGAACAAACTAGAAAGGAATATTGTATAAAGCGTGAAACGTCCCCAAGAAAAATGG
CGGACGAGGAACAATTCTCATTGTGTTGGAATAATTTCAACACCAACTTATCGGCTGGCT
TTCATGAATCGCTATGCCGCGGTGATCTCGTTGATGTAACTTTAGCAGCAGAAGGACAAT
TGGTGAAGGCACATCGTCTCGTTCTCTCAGTATGTTCACCATATTTCCGTAAAATGTTTA
CACAAATGCCCGCAAATCAACATGCATTTGTTTTTCTCAAAGACGTTAGTTCTACTGCAC
TTAAAGACTTGATTCAATTTATGTATTGTGGTGAAGTTAATGTTAAGCAAGAGGCATTGC
CAGCATTTATTAGCACAGCAGAAGCACTTCAAATTAAAGGATTAACAGAATCGAACGAAA
ATGTCGGCACTCAAGTCGGTTCAGTTTCACCAACCAAAGAACAACATGTCATCACATCCA
CTCCATTACCTGACCTCGCATCCATTCGTCCACGTGCTAGTGCACGCGTTGTCACTCGCC
CACAAACATTTAAATTAGAATCTGAGGGAAGCAGTGATGAGAAGCATACTGTTGCAATAG
TACAAACACCTCAGCCAATTAAACGCATTGCACGTCAGTCAATTACCGCTGTCGCACCAA
AACGACAAAAGACTCAAGTTAGCCAAATAGTACAAGAATCCCATCATCCTGATCCTCTCG
ATGCACCTGACCATGAAATAGTTTCACCGCAACAACTTAAAGAAACCACTGAATTCATTG
ACTTGCCAATCGAAACTACTAGTACGCTTAACCCAAAAACTGAACCGGAATATGTTGAAG
ACACACAAGAAGTTGAGACTGAACAGGATGACGATAATCAATATGTCGAAGATGTGACTT
ATGGCGAAGAAAAGTACGAGGAATCATATTTCACTGAAGGTGACGCGGACAAGGCTGGAG
TATCTGGATTTAGCGAAACATATGCAACAGAAGGCGATCAATCGGCAACGGAAGCACAAG

>g2505.t5 Gene=g2505 Length=321
MADEEQFSLCWNNFNTNLSAGFHESLCRGDLVDVTLAAEGQLVKAHRLVLSVCSPYFRKM
FTQMPANQHAFVFLKDVSSTALKDLIQFMYCGEVNVKQEALPAFISTAEALQIKGLTESN
ENVGTQVGSVSPTKEQHVITSTPLPDLASIRPRASARVVTRPQTFKLESEGSSDEKHTVA
IVQTPQPIKRIARQSITAVAPKRQKTQVSQIVQESHHPDPLDAPDHEIVSPQQLKETTEF
IDLPIETTSTLNPKTEPEYVEDTQEVETEQDDDNQYVEDVTYGEEKYEESYFTEGDADKA
GVSGFSETYATEGDQSATEAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2505.t5 CDD cd18315 BTB_POZ_BAB-like 31 115 1.21346E-37
5 g2505.t5 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 11 145 1.2E-28
9 g2505.t5 MobiDBLite mobidb-lite consensus disorder prediction 249 277 -
8 g2505.t5 MobiDBLite mobidb-lite consensus disorder prediction 262 277 -
10 g2505.t5 MobiDBLite mobidb-lite consensus disorder prediction 291 321 -
2 g2505.t5 PANTHER PTHR23110:SF97 MODIFIER OF MDG4 1 197 1.7E-94
3 g2505.t5 PANTHER PTHR23110 BTB DOMAIN TRANSCRIPTION FACTOR 1 197 1.7E-94
1 g2505.t5 Pfam PF00651 BTB/POZ domain 22 122 2.2E-24
11 g2505.t5 ProSiteProfiles PS50097 BTB domain profile. 32 98 21.347
7 g2505.t5 SMART SM00225 BTB_4 32 128 2.0E-21
4 g2505.t5 SUPERFAMILY SSF54695 POZ domain 5 119 6.59E-27

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:0005515 protein binding 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.

Raw TPM values