General information for g10825.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynein intermediate chain 3, ciliary.
Parent gene
- The parent gene g10825 is located on chr_1: 12153467..12155696 (- 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_1 | g10825 | g10825.t6 | TTS | g10825.t6 | 12150033 | 12150033 |
| chr_1 | g10825 | g10825.t6 | isoform | g10825.t6 | 12150122 | 12152401 |
| chr_1 | g10825 | g10825.t6 | exon | g10825.t6.exon1 | 12150122 | 12150481 |
| chr_1 | g10825 | g10825.t6 | cds | g10825.t6.CDS1 | 12150122 | 12150481 |
| chr_1 | g10825 | g10825.t6 | exon | g10825.t6.exon2 | 12150538 | 12150734 |
| chr_1 | g10825 | g10825.t6 | cds | g10825.t6.CDS2 | 12150538 | 12150734 |
| chr_1 | g10825 | g10825.t6 | exon | g10825.t6.exon3 | 12150795 | 12150947 |
| chr_1 | g10825 | g10825.t6 | cds | g10825.t6.CDS3 | 12150795 | 12150947 |
| chr_1 | g10825 | g10825.t6 | exon | g10825.t6.exon4 | 12151030 | 12151885 |
| chr_1 | g10825 | g10825.t6 | cds | g10825.t6.CDS4 | 12151030 | 12151714 |
| chr_1 | g10825 | g10825.t6 | exon | g10825.t6.exon5 | 12152384 | 12152401 |
| chr_1 | g10825 | g10825.t6 | TSS | g10825.t6 | 12152793 | 12152793 |
Sequences
>g10825.t6 Gene=g10825 Length=1584
TGTGATAGCGCAATACANAATTGCTCATTAATTTGTGCTACATATGTAACTACAGAGAAT
CCCACACTTTCTTCAATTGGTATCAATCATGTTGAAGGTGGTTGGCCAAAAGATATCAAT
CGTTTAGATGAAGAGCAAACAGCTCGTTATCGTAAGAAACAAGAAAAGGATGAATCGTAT
GTGACCCAAATGAAAGGTCTTATAAAGTCATGCGAAAATGCTATTTATCAGAATAATGCT
GTTAATTTATATGAAACATATTTCGAAGATATGGAGCAGATAGATTTAAAAGAGGAATAT
TCTTCGAAAACTTTGAACATGTTTCGTGATAGAACTAATAGAAATATTAGAAAAATAGCA
TGGAATCCAGATGATTCAACAAAATTTACAACAGCACATTGTGGCAATCAGACATACTTT
GATTATTTGAATGATGAGTCTAATACGATGCATATTTGGGATATTGAGTATACTAAGAAG
CCTATAAGAACTTTTGATAACCATGCGCAATCATTATGCTTCGAATATAATCCAAAAGAA
CATTCGACCTTAGTCACTGGAATGATCACAGGGCAAATAGCTATATATGATACAAGACAG
AATACTCAATTTCCACAAACAGTTTCATATCGAGAAAATTCACATAAAGACCAAGTTAAT
GCTGTTACATTTTATTGCTCAAAATCAAATATGGAGTTTTTTAGTGGTAGCTCAAGCGGA
GAAATTTATTGGTGGGATTCGAGAATGATTGAAAATGGACCTATTGAAGTTCTCGTATTG
CAGCCAGAAGTAATGCAAGATAGTATAGCAAAAAAGGAAGAGAAGGCTTTTGGTGTGGTA
GCATTAGAGTATGAGAGCACTATTCCAACAAAATATATTGTAGGAACAGATCATGGAGTG
GTTTATATTTGCAATAAGCGTTTTAAGACACCGGCTGATAGAATTTATTCTAAAGTTCAA
TGCTATAATGGTGTAGTATCAGCAGTTCAAAGAAATCCTTCATTTTTGAAATTTTTTTTG
AGTGTTGGTGATTTTCAAGCGAAACTTTGGTGTGAAGAGTTGAAGGAGCAACCAATTTTT
TGGACTAAAGAATATTCTTCTGAACTCACATTTGGTTGTTGGAATGCTATTAGATGTTCG
AGCTTTTATTTATGCAGAATGGATGGAGTTTTTGATGCATGGGATATTATTCATAGAAGC
GACAGGCCTGTTTTATCAACTAAAATTTCAGATCACACGCTGTTAACATGTTCACCTCAT
AAGGAAGGAAAATTAATCCTTGTTGGCACAAGTGGTGGTGATATACATTTATTACAGCTA
TCAGAGAACTTAGCCACAACAACAGTTAATGATAGACCACATATGGCAGTCGTCCTCGAT
AGAGAGACACGAAGAGAAAAGCTTCTTGAAAATAAACAACGTGAGGTGAAGTTAAAAGAA
AAGGAGAAAGAGCGAGAACAAATTCGAATGAAGTTAGGCTTGCCAGATCCTGAAGAAGTA
GAGATGGCGTTAGCTAACGATTTGGCTAAACAAGCAGAAGTAAATTTTCATTTACAGATT
GAGCAGTTGAAATTACATTGTTAA
>g10825.t6 Gene=g10825 Length=464
MKGLIKSCENAIYQNNAVNLYETYFEDMEQIDLKEEYSSKTLNMFRDRTNRNIRKIAWNP
DDSTKFTTAHCGNQTYFDYLNDESNTMHIWDIEYTKKPIRTFDNHAQSLCFEYNPKEHST
LVTGMITGQIAIYDTRQNTQFPQTVSYRENSHKDQVNAVTFYCSKSNMEFFSGSSSGEIY
WWDSRMIENGPIEVLVLQPEVMQDSIAKKEEKAFGVVALEYESTIPTKYIVGTDHGVVYI
CNKRFKTPADRIYSKVQCYNGVVSAVQRNPSFLKFFLSVGDFQAKLWCEELKEQPIFWTK
EYSSELTFGCWNAIRCSSFYLCRMDGVFDAWDIIHRSDRPVLSTKISDHTLLTCSPHKEG
KLILVGTSGGDIHLLQLSENLATTTVNDRPHMAVVLDRETRREKLLENKQREVKLKEKEK
EREQIRMKLGLPDPEEVEMALANDLAKQAEVNFHLQIEQLKLHC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10825.t6 | Coils | Coil | Coil | 402 | 428 | - |
| 9 | g10825.t6 | Gene3D | G3DSA:2.130.10.10 | - | 29 | 203 | 1.3E-17 |
| 10 | g10825.t6 | Gene3D | G3DSA:2.130.10.10 | - | 226 | 404 | 1.4E-5 |
| 1 | g10825.t6 | PANTHER | PTHR12442:SF7 | DYNEIN INTERMEDIATE CHAIN 2, AXONEMAL | 2 | 426 | 2.4E-106 |
| 2 | g10825.t6 | PANTHER | PTHR12442 | DYNEIN INTERMEDIATE CHAIN | 2 | 426 | 2.4E-106 |
| 7 | g10825.t6 | SMART | SM00320 | WD40_4 | 38 | 91 | 270.0 |
| 6 | g10825.t6 | SMART | SM00320 | WD40_4 | 95 | 134 | 5.5 |
| 5 | g10825.t6 | SMART | SM00320 | WD40_4 | 142 | 183 | 1.6 |
| 4 | g10825.t6 | SMART | SM00320 | WD40_4 | 249 | 288 | 170.0 |
| 8 | g10825.t6 | SMART | SM00320 | WD40_4 | 339 | 376 | 210.0 |
| 3 | g10825.t6 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 49 | 378 | 1.01E-28 |
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.
