General information for g15852.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynein light chain 1, axonemal.
Parent gene
- The parent gene g15852 is located on chr_4: 7023048..7023849 (+ 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_4 | g15852 | g15852.t1 | isoform | g15852.t1 | 7023048 | 7023849 |
| chr_4 | g15852 | g15852.t1 | exon | g15852.t1.exon1 | 7023048 | 7023158 |
| chr_4 | g15852 | g15852.t1 | cds | g15852.t1.CDS1 | 7023048 | 7023158 |
| chr_4 | g15852 | g15852.t1 | exon | g15852.t1.exon2 | 7023325 | 7023368 |
| chr_4 | g15852 | g15852.t1 | cds | g15852.t1.CDS2 | 7023325 | 7023368 |
| chr_4 | g15852 | g15852.t1 | exon | g15852.t1.exon3 | 7023420 | 7023849 |
| chr_4 | g15852 | g15852.t1 | cds | g15852.t1.CDS3 | 7023420 | 7023849 |
| chr_4 | g15852 | g15852.t1 | TSS | g15852.t1 | NA | NA |
| chr_4 | g15852 | g15852.t1 | TTS | g15852.t1 | NA | NA |
Sequences
>g15852.t1 Gene=g15852 Length=585
ATGGCACAAAAAGCAACGACAATTAAAGAAGCAATTAAACGTTTTGAGGAACGATATCGA
TGCAATGCTACTGAAGCTGTTGAAGTCCATTTAGAATTCCAATGGCCGCCCATTGAAAAA
TTGGATCCACAATTGGGAACACTTGTAAAATGCGAAAAACTCAGTCTATCAACAAACATG
ATTGATAAAATAATAGGCCTGAATGGAATGCGAAATTTAAAAATTCTTTCAATTGGTCGA
AATTATATTAAATCAATCTCTGGACTTGAACCAGTTGCTGACACTCTTGAAGAACTTTGG
ATGAGTTACAATTTTATTGAAAAACTTAAAGGAATTAATGTTCTTAAAAAACTTCGAGTT
TTTTATCTTTCAAATAATCTTGTTAAAGATTGGGTTGAATTCAATCGATTACAAGAAGTG
ACAACTTTAGAGGAATTGCTTTTTGTTGGGAACCCTTTACCTGAATCCATGGATGAAAGT
GTTTGGAAAGTTGAAGCAGCAAGACGATTGCCATTTTTAAGGAAACTTGATGGTGAGCCA
GTTGTAAGAGAGGAACCTAAAGCTATTGAAGGTGAACCACAATGA
>g15852.t1 Gene=g15852 Length=194
MAQKATTIKEAIKRFEERYRCNATEAVEVHLEFQWPPIEKLDPQLGTLVKCEKLSLSTNM
IDKIIGLNGMRNLKILSIGRNYIKSISGLEPVADTLEELWMSYNFIEKLKGINVLKKLRV
FYLSNNLVKDWVEFNRLQEVTTLEELLFVGNPLPESMDESVWKVEAARRLPFLRKLDGEP
VVREEPKAIEGEPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g15852.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 2 | 191 | 0.000e+00 |
| 2 | g15852.t1 | PANTHER | PTHR15454:SF33 | DYNEIN LIGHT CHAIN 1, AXONEMAL | 4 | 185 | 0.000e+00 |
| 3 | g15852.t1 | PANTHER | PTHR15454 | NISCHARIN RELATED | 4 | 185 | 0.000e+00 |
| 1 | g15852.t1 | Pfam | PF12799 | Leucine Rich repeats (2 copies) | 50 | 90 | 3.100e-06 |
| 13 | g15852.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 50 | 71 | 6.280e+00 |
| 11 | g15852.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 72 | 93 | 7.612e+00 |
| 10 | g15852.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 95 | 116 | 7.697e+00 |
| 12 | g15852.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 117 | 138 | 6.595e+00 |
| 7 | g15852.t1 | SMART | SM00365 | LRR_sd22_2 | 48 | 69 | 2.200e+01 |
| 6 | g15852.t1 | SMART | SM00365 | LRR_sd22_2 | 70 | 91 | 1.800e+00 |
| 5 | g15852.t1 | SMART | SM00365 | LRR_sd22_2 | 93 | 114 | 3.300e+00 |
| 8 | g15852.t1 | SMART | SM00365 | LRR_sd22_2 | 115 | 136 | 2.000e+02 |
| 4 | g15852.t1 | SUPERFAMILY | SSF52058 | L domain-like | 34 | 184 | 0.000e+00 |
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 transcript has been annotated with K10411 (dynein axonemal light chain 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. There were no conditions that were differentially expressed