Gene loci information

Transcript annotation

  • This transcript has been annotated as Congested-like trachea protein.

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 g8024 g8024.t2 TSS g8024.t2 27957285 27957285
chr_2 g8024 g8024.t2 isoform g8024.t2 27957504 27958181
chr_2 g8024 g8024.t2 exon g8024.t2.exon1 27957504 27957599
chr_2 g8024 g8024.t2 cds g8024.t2.CDS1 27957504 27957599
chr_2 g8024 g8024.t2 exon g8024.t2.exon2 27957658 27957893
chr_2 g8024 g8024.t2 cds g8024.t2.CDS2 27957658 27957893
chr_2 g8024 g8024.t2 exon g8024.t2.exon3 27957955 27958181
chr_2 g8024 g8024.t2 cds g8024.t2.CDS3 27957955 27958180
chr_2 g8024 g8024.t2 TTS g8024.t2 NA NA

Sequences

>g8024.t2 Gene=g8024 Length=559
ATGTCTGAGGAAAATGCATCAACAAAAACTAATCAATCACCCATCAAGTATTTTATTAGT
GGAGGCTTTGGAGGCATATGCACAGTTGTCGTTGGGCATCCATTTGATACAATTAAAGTA
AGACTGCAGACAGCAAACTTGACAAATTCATCCTATACAGGAATGATTGATTGTGCTTCG
AAGACTATTAAAAAAGAAGGAGTTCGAGGACTATACAAAGGTATGAGTGCTCCAATCGCG
GGAGTTGCACCAATTTTTGCAATTTCATTTTTTGGTTTCGGTGTTGGCAAGAAACTTTTG
CAGAAAGAAGATCAATCATTAGATAATACTAGACTATTTCTAGCTGGTGCATTTTCGGGT
ATTTTTACGACATCAGTGATGGCACCCGGAGAACGCATCAAATGCCTCCTTCAAGTTCAA
CAGGGAGGTGGTGAACAGAAATATAATGGAATGGTCGATTGTGCAAAGAAGTTATATAAA
GAGGGAGGTATTCGATCAATTTATAAGGGCTCATTGGCAACTCTATTAAGAGGTAAGAGT
ATTAAGATATCTTTATTAA

>g8024.t2 Gene=g8024 Length=186
MSEENASTKTNQSPIKYFISGGFGGICTVVVGHPFDTIKVRLQTANLTNSSYTGMIDCAS
KTIKKEGVRGLYKGMSAPIAGVAPIFAISFFGFGVGKKLLQKEDQSLDNTRLFLAGAFSG
IFTTSVMAPGERIKCLLQVQQGGGEQKYNGMVDCAKKLYKEGGIRSIYKGSLATLLRGKS
IKISLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g8024.t2 Gene3D G3DSA:1.50.40.10 Mitochondrial carrier domain 1 106 7.5E-26
9 g8024.t2 Gene3D G3DSA:1.50.40.10 Mitochondrial carrier domain 107 183 2.3E-18
3 g8024.t2 PANTHER PTHR45624:SF4 MITOCHONDRIAL CARNITINE/ACYLCARNITINE CARRIER PROTEIN 6 177 4.0E-67
4 g8024.t2 PANTHER PTHR45624 MITOCHONDRIAL BASIC AMINO ACIDS TRANSPORTER-RELATED 6 177 4.0E-67
2 g8024.t2 Pfam PF00153 Mitochondrial carrier protein 13 103 1.2E-24
1 g8024.t2 Pfam PF00153 Mitochondrial carrier protein 108 178 6.4E-17
12 g8024.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 70 -
15 g8024.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 71 92 -
14 g8024.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 93 111 -
16 g8024.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 112 130 -
13 g8024.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 131 186 -
11 g8024.t2 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 12 99 22.62
10 g8024.t2 ProSiteProfiles PS50920 Solute carrier (Solcar) repeat profile. 107 186 16.935
7 g8024.t2 SUPERFAMILY SSF103506 Mitochondrial carrier 12 177 1.44E-49
6 g8024.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
5 g8024.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 96 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

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