General information for g11819.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Dynein light chain 1, cytoplasmic.
Parent gene
- The parent gene g11819 is located on chr_1: 18570031..18582989 (+ 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 | g11819 | g11819.t5 | isoform | g11819.t5 | 18569496 | 18577804 |
| chr_1 | g11819 | g11819.t5 | exon | g11819.t5.exon1 | 18569496 | 18569705 |
| chr_1 | g11819 | g11819.t5 | TSS | g11819.t5 | 18569515 | 18569515 |
| chr_1 | g11819 | g11819.t5 | exon | g11819.t5.exon2 | 18570012 | 18570138 |
| chr_1 | g11819 | g11819.t5 | cds | g11819.t5.CDS1 | 18570031 | 18570138 |
| chr_1 | g11819 | g11819.t5 | exon | g11819.t5.exon3 | 18577378 | 18577467 |
| chr_1 | g11819 | g11819.t5 | cds | g11819.t5.CDS2 | 18577378 | 18577467 |
| chr_1 | g11819 | g11819.t5 | exon | g11819.t5.exon4 | 18577608 | 18577804 |
| chr_1 | g11819 | g11819.t5 | cds | g11819.t5.CDS3 | 18577608 | 18577712 |
| chr_1 | g11819 | g11819.t5 | TTS | g11819.t5 | 18578010 | 18578010 |
Sequences
>g11819.t5 Gene=g11819 Length=624
GCTAGAATTCATCATAGTTTTATAAAAGGTCCCTGCTAGAGTAACCGATTTTTAGAAAGA
AAAAATTAAAGCGAGTGAATATAAAATAAATTCACGGTGAAATAAGTATTAAACCGATCC
AGAAGTCGCATTTAATTACGCTTAATTGATTAAAATTTAAGTGAAAGTTCTCATTTGTAT
TAATTAATTCCAAATTTTTGAGAAAAACAAATCATAAACGGCACAAAACATGAGTGATAG
AAAAGCAGTGATTAAAAATGCTGATATGGGTGAAGAAATGCAACAAGATGCAGTAGATTG
TGCAACTCAAGCACTTGAAAAGTATAACATCGAAAAGGACATTGCTGCATACATAAAAAA
AGAATTTGACAAGAAGTACAATCCTACATGGCATTGCATTGTTGGTCGTAATTTTGGATC
ATACGTCAATCATATTTCAACAGCAAATCACAAACTTAACAGAATTTCAATGTTGCACAG
ATGCACTCAAATCAAACTCAAATATTATTTTTTCTATTTTGTAATATCTTAACATTTTCT
GTTCTTCAAATTAAAATAATAAATATTCAATAACCAAATGATGTCGATAAAAATAATAGC
GATAGGTTTTGGGGACAAACTAAA
>g11819.t5 Gene=g11819 Length=100
MSDRKAVIKNADMGEEMQQDAVDCATQALEKYNIEKDIAAYIKKEFDKKYNPTWHCIVGR
NFGSYVNHISTANHKLNRISMLHRCTQIKLKYYFFYFVIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11819.t5 | Gene3D | G3DSA:3.30.740.10 | Protein Inhibitor Of Neuronal Nitric Oxide Synthase; | 1 | 98 | 0 |
| 2 | g11819.t5 | PANTHER | PTHR11886:SF62 | DYNEIN LIGHT CHAIN | 1 | 68 | 0 |
| 3 | g11819.t5 | PANTHER | PTHR11886 | DYNEIN LIGHT CHAIN | 1 | 68 | 0 |
| 1 | g11819.t5 | Pfam | PF01221 | Dynein light chain type 1 | 5 | 70 | 0 |
| 5 | g11819.t5 | SMART | SM01375 | Dynein_light_2 | 1 | 85 | 0 |
| 4 | g11819.t5 | SUPERFAMILY | SSF54648 | DLC | 2 | 70 | 0 |
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:0030286 | dynein complex | CC |
| GO:0007017 | microtubule-based process | BP |
KEGG
Orthology
- This transcript has been annotated with K10418 (dynein light chain LC8-type)
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.
