General information for g14227.t1
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 g14227 is located on chr_1: 35648345..35650995 (+ 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 | g14227 | g14227.t1 | isoform | g14227.t1 | 35648345 | 35650995 |
| chr_1 | g14227 | g14227.t1 | exon | g14227.t1.exon1 | 35648345 | 35649280 |
| chr_1 | g14227 | g14227.t1 | cds | g14227.t1.CDS1 | 35648345 | 35649280 |
| chr_1 | g14227 | g14227.t1 | exon | g14227.t1.exon2 | 35649950 | 35649995 |
| chr_1 | g14227 | g14227.t1 | cds | g14227.t1.CDS2 | 35649950 | 35649995 |
| chr_1 | g14227 | g14227.t1 | exon | g14227.t1.exon3 | 35650050 | 35650202 |
| chr_1 | g14227 | g14227.t1 | cds | g14227.t1.CDS3 | 35650050 | 35650202 |
| chr_1 | g14227 | g14227.t1 | exon | g14227.t1.exon4 | 35650389 | 35650585 |
| chr_1 | g14227 | g14227.t1 | cds | g14227.t1.CDS4 | 35650389 | 35650585 |
| chr_1 | g14227 | g14227.t1 | exon | g14227.t1.exon5 | 35650636 | 35650995 |
| chr_1 | g14227 | g14227.t1 | cds | g14227.t1.CDS5 | 35650636 | 35650995 |
| chr_1 | g14227 | g14227.t1 | TSS | g14227.t1 | NA | NA |
| chr_1 | g14227 | g14227.t1 | TTS | g14227.t1 | NA | NA |
Sequences
>g14227.t1 Gene=g14227 Length=1692
ATGAAACGTTATAGAAGAACAATTCCAAAATTTAAAGATTTTGATGAAGTTATTGTGTCA
TATGAAAAAACAAAAAAGAAGAGAATAAAAATTTTAAATCCTTGTGATAATGCAATTCAA
AATTGTTCATTTTCATGTGAAACTTATGTGACAACTGAAAATCCAATTTTAGTATCAAGT
GGTGTAAATCATGTCGAAGGTGGTTGGCCAAAAGATATTAATCGTTTGGATGAAGAACAA
ACAGCTCGTTATCGAAAGAAACAGGAAAAAGACGAAGCTTATGTCACTCAAATGAAGAAA
ATTATCAAGTCGTGTTCTGATGCAATTTATCAAAACAATGCCATTAATTTATATGAAAAT
TATTTTGAAGATATTGAAGAAATTGACTTAAAAGAAGAATATTCTTCAAAAACTCTAAAT
ATGTATCGTGATGGAACTAAAAGAAATGTCAGAAAAATCCAATGGAATCCAGATGATGGA
ACCAAATTTACTACATCACACAGTGGAAATGAGACATATTTTGATTATTTAATTGATGAA
GAAAACACAATGCACATTTGGGATGTTGATTATCCAAAATCACCGATTATAACACTCGAT
AATTATGCACAGTCACAATGCTTTGAATACAATCCAAAAGAACATTCAATTTTGGTCACT
GGAATGGTGACAGGACAAATTTGTGTTTATGACACTAGATCAAATCAAAAATTTCCACAA
CTTATTTCAGTTCGTGAAACTTCACATAAAGATCAAGTCAATTCTGTCACATTTTATTGT
TCAAAAACAAATATGGAATTTTTTAGTGGCAGTTCAGCAGGAGAAATTTGTTGGTGGGAT
CAAAGAAATTTAAATGAGCCAATTGACGTTTTACTTTTTGAACCTGAAACTATGAAAGAT
GGAATAACAAAGACAGAACAAAAAGCATTCGGAATTCTTTGGAATATAGCTTTGGAATAT
GAGTCAACAATTCCAACAAAATATATGGTTGGAACTGATCATGGAGTTGTTTATATTTGT
AATAAACGTTTTAAAACACCGGCTGACAGAATTTATTCGAGGGTTCAATGTCATGCTGGT
TTCATTTCCGCAGTTCAACGGAATCCGTCGTTTTTAAAATTCTTTCTAAGTGTTGGTGAT
TTTCAAGCAAAAATTTGGTGTGAAGAATTGAAAGAGCAGCCAATATTTTGGACTAAAGAA
TATTCATCTGAACTCACATTTGGTTGTTGGAATTCCGTTCGTTGTTCAAGCTTTTATTTA
TGCAGAATGGATGGAGTTTTTGATGCTTGGGATGTAATTCATCGAAGTGATCGACCTGTG
CTGTCAACTAAAATTTCAGATTATACTTTATTAACTTGTGAACCTCATAAAGAAGGGAAA
TTAAATTTGATTGGTACAAGTGGTGGTGACATTCATTTGTTAGAAATGTCAGAAAATTTA
TCAACTTCTACCGCTAATGATAGGCCCGCAATGGCTGTCGTTCTTGATAGAGAAACAAGA
AGAGAAAAACTTCTTGAAAATAAACAACGTGAATTGAAATTAAAGGAAAAAGAGAAAGAA
AGGGAGCAAATTCGAATTAAATTAGGCTTGCCAGATCCTGAAGAAGTTGAACTTAATTTA
GCTAATGATTTAGCAAAGCAAGCTGAAGTTACTTTTCATTTACAGATTGAGCAATTGAAA
TTGCATTGTTAA
>g14227.t1 Gene=g14227 Length=563
MKRYRRTIPKFKDFDEVIVSYEKTKKKRIKILNPCDNAIQNCSFSCETYVTTENPILVSS
GVNHVEGGWPKDINRLDEEQTARYRKKQEKDEAYVTQMKKIIKSCSDAIYQNNAINLYEN
YFEDIEEIDLKEEYSSKTLNMYRDGTKRNVRKIQWNPDDGTKFTTSHSGNETYFDYLIDE
ENTMHIWDVDYPKSPIITLDNYAQSQCFEYNPKEHSILVTGMVTGQICVYDTRSNQKFPQ
LISVRETSHKDQVNSVTFYCSKTNMEFFSGSSAGEICWWDQRNLNEPIDVLLFEPETMKD
GITKTEQKAFGILWNIALEYESTIPTKYMVGTDHGVVYICNKRFKTPADRIYSRVQCHAG
FISAVQRNPSFLKFFLSVGDFQAKIWCEELKEQPIFWTKEYSSELTFGCWNSVRCSSFYL
CRMDGVFDAWDVIHRSDRPVLSTKISDYTLLTCEPHKEGKLNLIGTSGGDIHLLEMSENL
STSTANDRPAMAVVLDRETRREKLLENKQRELKLKEKEKEREQIRIKLGLPDPEEVELNL
ANDLAKQAEVTFHLQIEQLKLHC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14227.t1 | Coils | Coil | Coil | 495 | 527 | - |
| 1 | g14227.t1 | PANTHER | PTHR12442:SF7 | DYNEIN INTERMEDIATE CHAIN 2, AXONEMAL | 5 | 525 | 8.8E-132 |
| 2 | g14227.t1 | PANTHER | PTHR12442 | DYNEIN INTERMEDIATE CHAIN | 5 | 525 | 8.8E-132 |
| 7 | g14227.t1 | SMART | SM00320 | WD40_4 | 135 | 188 | 220.0 |
| 5 | g14227.t1 | SMART | SM00320 | WD40_4 | 192 | 231 | 40.0 |
| 6 | g14227.t1 | SMART | SM00320 | WD40_4 | 238 | 280 | 4.1 |
| 4 | g14227.t1 | SMART | SM00320 | WD40_4 | 348 | 387 | 24.0 |
| 3 | g14227.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 145 | 473 | 2.64E-25 |
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. There were no conditions that were differentially expressed