General information for g4019.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Complex I intermediate-associated protein 30, mitochondrial.
Parent gene
- The parent gene g4019 is located on chr_3: 29547497..29548098 (+ strand)
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 | g4019 | g4019.t4 | TSS | g4019.t4 | 29547033 | 29547033 |
| chr_3 | g4019 | g4019.t4 | isoform | g4019.t4 | 29547267 | 29548098 |
| chr_3 | g4019 | g4019.t4 | exon | g4019.t4.exon1 | 29547267 | 29547436 |
| chr_3 | g4019 | g4019.t4 | cds | g4019.t4.CDS1 | 29547304 | 29547436 |
| chr_3 | g4019 | g4019.t4 | exon | g4019.t4.exon2 | 29547494 | 29548098 |
| chr_3 | g4019 | g4019.t4 | cds | g4019.t4.CDS2 | 29547494 | 29548098 |
| chr_3 | g4019 | g4019.t4 | TTS | g4019.t4 | 29548133 | 29548133 |
Sequences
>g4019.t4 Gene=g4019 Length=775
AGGATATGAAGGTCCAAGAAAACTTTTAACGACTAAGATGATTTTAGATGGATTAAAAGA
TCTTAAAGAAGAGATCAAAATATGGAAAGAAGAAATGCAAGAGAAATTAGAAAGCGATCC
TATTTTAGTTTACCGACCGAATGAAATTGATGTCTATTGTAGATTTACATCTCCTGAAGT
TATAGATAACTGGATTGTTACTAGTGACAGTGATCATAATGAAGGACATAGCAAATGTAC
TTTTAAAACAAGTGCAGCTGGCTATGGCTTATGGAGTGGAGTTGTAACTTCATTATTGCC
TCAAGATGGTCGAATTAAAAAAGCCGGATATTGCAGTATAAGAAGCCAAAGACATACTAA
ATCATTTAGAAGAAATACATATTTCGATTGGAGTGCTTATAACACTTTAGTGTTGAGAGT
TCGTGGTGATGGAAGACCTTATATGATCAATATTGGTTCTGAAGGCACATTTGATATAAC
ATGGAATGATATTTATCACTTTGTTCTCTATACAAGAGGCGGTCCTCATTGGCAAATCAC
AAAAATTCCTTTTTCAAAGTTTATGCTTGCATCGAATGGCGTTGTTCAGGATAAACAATA
TCCGATACCACTCAATAAAATAACTAGTTTTGGCTTATCAGTCTCCGGTAGGGGTGGGTT
CGATGGTCCATTTAGTTTAGAAATCGATTATATTGGACTTGAGTTTGATCCATCAAATAG
TGAAGAGTTTGCTTATGAAATGTATAAGCAAGAAAAATATATTGTAGCCACATAA
>g4019.t4 Gene=g4019 Length=245
MILDGLKDLKEEIKIWKEEMQEKLESDPILVYRPNEIDVYCRFTSPEVIDNWIVTSDSDH
NEGHSKCTFKTSAAGYGLWSGVVTSLLPQDGRIKKAGYCSIRSQRHTKSFRRNTYFDWSA
YNTLVLRVRGDGRPYMINIGSEGTFDITWNDIYHFVLYTRGGPHWQITKIPFSKFMLASN
GVVQDKQYPIPLNKITSFGLSVSGRGGFDGPFSLEIDYIGLEFDPSNSEEFAYEMYKQEK
YIVAT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4019.t4 | Coils | Coil | Coil | 6 | 26 | - |
| 5 | g4019.t4 | Gene3D | G3DSA:2.60.120.430 | - | 44 | 222 | 2.2E-7 |
| 2 | g4019.t4 | PANTHER | PTHR13194:SF18 | COMPLEX I INTERMEDIATE-ASSOCIATED PROTEIN 30, MITOCHONDRIAL | 10 | 239 | 4.3E-64 |
| 3 | g4019.t4 | PANTHER | PTHR13194 | COMPLEX I INTERMEDIATE-ASSOCIATED PROTEIN 30 | 10 | 239 | 4.3E-64 |
| 1 | g4019.t4 | Pfam | PF08547 | Complex I intermediate-associated protein 30 (CIA30) | 42 | 216 | 6.2E-36 |
| 4 | g4019.t4 | SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 41 | 220 | 4.25E-33 |
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
Orthology
- This transcript has been annotated with K18159 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex assembly factor 1)
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.
