General information for g8532.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lambda-crystallin-like protein.
Parent gene
- The parent gene g8532 is located on chr_2: 31139518..31140072 (+ 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_2 | g8532 | g8532.t1 | isoform | g8532.t1 | 31138289 | 31139967 |
| chr_2 | g8532 | g8532.t1 | exon | g8532.t1.exon1 | 31138289 | 31138332 |
| chr_2 | g8532 | g8532.t1 | cds | g8532.t1.CDS1 | 31138289 | 31138332 |
| chr_2 | g8532 | g8532.t1 | exon | g8532.t1.exon2 | 31138944 | 31139426 |
| chr_2 | g8532 | g8532.t1 | cds | g8532.t1.CDS2 | 31138944 | 31139426 |
| chr_2 | g8532 | g8532.t1 | exon | g8532.t1.exon3 | 31139487 | 31139701 |
| chr_2 | g8532 | g8532.t1 | cds | g8532.t1.CDS3 | 31139487 | 31139701 |
| chr_2 | g8532 | g8532.t1 | exon | g8532.t1.exon4 | 31139756 | 31139967 |
| chr_2 | g8532 | g8532.t1 | cds | g8532.t1.CDS4 | 31139756 | 31139967 |
| chr_2 | g8532 | g8532.t1 | TTS | g8532.t1 | 31140081 | 31140081 |
| chr_2 | g8532 | g8532.t1 | TSS | g8532.t1 | NA | NA |
Sequences
>g8532.t1 Gene=g8532 Length=954
ATGGAGCCTATTTTAAAAGATCGTAAAATTGCAATTATCGGAAGCGGATTAATTGGGATG
TCATGGTCAATGATTTTTGCTTCAGCTGGTTATAAAGTTGTTATCTTTGATATTGTGCAA
TCACAAATTGATAATGCACTTAAACAGATCGAGTGTCAATTGAAGAGTTTAGAAGAAAGA
GGCTTATTACGTGGAAAGTTGACTGCAAAACAGCAATATAGCTGTATTTCAGGATGCACT
GATATCAAAGAAGCTGTAACAGGAGCTTTTTTTATGCAAGAGTGTGTCCCAGAAAATATT
GAATTGAAGAAAAAATTGTACAAACAATTGGATGAAATTGTTGATGATAAAATCATTATT
TCTTCATCAACTTCGACATTTATGCCTTCTATTTTCTCTGATGATATGAAACATCGTGCA
CAAGTTTTAGTTTCTCATCCAGTTAATCCACCTTACTATGTACCACTTGTTGAAATTGTT
CCTTCTAAACATACACGAAAAGATATTCCAACAATTACAAGAGCTTTAATGACTGAAGTT
GGTCAAAAACCTGTTGTTCTTTCTCGTGAAATTGAGGGATTTGCATTGAATCGAATTCAA
TATGCAATTTTAAATGAATGCTGGCGTTTAATTGCTGATGGTATTTTGGATGTTAAAGAT
ATTGATTCAGTAATGTCTGATGGATTGGGAATGAGATATGCTTTCCTAGGGCCAATGGAG
ACAGCTCATTTAAATGCAGAAGGTTTCCTTTCATATTGCGATCGATATTCAAAGACAATT
TATGCTGTCAGTGAAACGATGGGACCAGTTCCGAAAATGGAAGGTCCCGTTATGGAGCAA
GTTGCTAAGGAATTGGAACAAATGTGTCCTCTTGAAGATTTAGAAAAACGCCGAAAGTGG
CGCGACACATGTTTAACAGAGTTGAGTAAGATGAAAAAAGAATTAAATGATTGA
>g8532.t1 Gene=g8532 Length=317
MEPILKDRKIAIIGSGLIGMSWSMIFASAGYKVVIFDIVQSQIDNALKQIECQLKSLEER
GLLRGKLTAKQQYSCISGCTDIKEAVTGAFFMQECVPENIELKKKLYKQLDEIVDDKIII
SSSTSTFMPSIFSDDMKHRAQVLVSHPVNPPYYVPLVEIVPSKHTRKDIPTITRALMTEV
GQKPVVLSREIEGFALNRIQYAILNECWRLIADGILDVKDIDSVMSDGLGMRYAFLGPME
TAHLNAEGFLSYCDRYSKTIYAVSETMGPVPKMEGPVMEQVAKELEQMCPLEDLEKRRKW
RDTCLTELSKMKKELND
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8532.t1 | Coils | Coil | Coil | 40 | 60 | - |
| 7 | g8532.t1 | Gene3D | G3DSA:3.40.50.720 | - | 5 | 193 | 1.3E-58 |
| 8 | g8532.t1 | Gene3D | G3DSA:1.10.1040.10 | - | 194 | 317 | 9.8E-47 |
| 3 | g8532.t1 | PANTHER | PTHR48075 | 3-HYDROXYACYL-COA DEHYDROGENASE FAMILY PROTEIN | 10 | 316 | 1.8E-128 |
| 4 | g8532.t1 | PANTHER | PTHR48075:SF1 | LAMBDA-CRYSTALLIN HOMOLOG | 10 | 316 | 1.8E-128 |
| 2 | g8532.t1 | Pfam | PF02737 | 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain | 9 | 187 | 1.6E-47 |
| 1 | g8532.t1 | Pfam | PF00725 | 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain | 193 | 264 | 7.7E-14 |
| 10 | g8532.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 12 | g8532.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 11 | g8532.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 32 | 317 | - |
| 14 | g8532.t1 | ProSitePatterns | PS00067 | 3-hydroxyacyl-CoA dehydrogenase signature. | 190 | 214 | - |
| 5 | g8532.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 7 | 190 | 4.07E-46 |
| 6 | g8532.t1 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 193 | 261 | 8.5E-12 |
| 13 | g8532.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
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:0016616 | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor | MF |
| GO:0070403 | NAD+ binding | MF |
| GO:0006631 | fatty acid metabolic process | BP |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K13247 (L-gulonate 3-dehydrogenase)
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.
