General information for g8977.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Elongation of very long chain fatty acids protein 6.
Parent gene
- The parent gene g8977 is located on chr_2: 34313235..34315040 (- 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 | g8977 | g8977.t1 | TTS | g8977.t1 | 34306777 | 34306777 |
| chr_2 | g8977 | g8977.t1 | isoform | g8977.t1 | 34307691 | 34314115 |
| chr_2 | g8977 | g8977.t1 | exon | g8977.t1.exon1 | 34307691 | 34308249 |
| chr_2 | g8977 | g8977.t1 | cds | g8977.t1.CDS1 | 34307691 | 34308249 |
| chr_2 | g8977 | g8977.t1 | exon | g8977.t1.exon2 | 34310749 | 34310886 |
| chr_2 | g8977 | g8977.t1 | cds | g8977.t1.CDS2 | 34310749 | 34310886 |
| chr_2 | g8977 | g8977.t1 | exon | g8977.t1.exon3 | 34313832 | 34313894 |
| chr_2 | g8977 | g8977.t1 | cds | g8977.t1.CDS3 | 34313832 | 34313894 |
| chr_2 | g8977 | g8977.t1 | exon | g8977.t1.exon4 | 34313967 | 34314115 |
| chr_2 | g8977 | g8977.t1 | cds | g8977.t1.CDS4 | 34313967 | 34314115 |
| chr_2 | g8977 | g8977.t1 | TSS | g8977.t1 | 34315042 | 34315042 |
Sequences
>g8977.t1 Gene=g8977 Length=909
ATGCAAGTCGATTTAGAATCAATCGGTAAATGGAATTATGACATCAGTGAAGTCAAACCA
AATTATTCCTACATGTTTGACTTTGAGGCTCATTTCACTCATCAAAAAACTCGCCTTTGG
ATGCAAGAAAATTGGACATATGTGTTTTGGTACTCGGGAATTTACATGATCGTAATATTT
GCTGGACAACAGTTTATGGCAAATAGACCGAGATTTGAACTAAGAGGACTTTTAGTATTG
TGGAATTCAATGTTAGCATTATTCAGTATAATTGGTTTTACTCGTACAGCACCCGAATTA
ATTCACGTTTTAAAGAACTTCGGACTATTTCATTCTGTTTGTGTTCCTAGTTATATTTTA
CATGATCGTGTTTGCGGATTTTGGACATGGCTTTTTGTGCTTTCAAAACTGCCTGAGCTT
GGTGATACAATTTTCATTGTACTTCGCAAGCAACCACTCATTTTCTTACACTGGTATCAT
CATATCACAGTTCTTATGTATTCATGGTTCTCATATCAAGAGTATACAGCATCAGCACGG
TGGTTTGTTGTCATGAATTACTGCGTTCATTCACTGATGTACAGCTACTATGCACTTAGA
GCTATGAAATTTAATCCACCAAGATTTATCTCAATGATTATTACGGGTCTGCAATTAACT
CAAATGATCATCGGATGTGCAATCAATATTTGGGCTTATGATTATCTTCAAACAGCTGGT
CACACTTGCAATATTTCATTGACAAATATTAAATTTTCAATTGCTATGTATGCTAGCTAC
TTCATTCTATTTGCACGTTTCTTCCATCTTACATATTTGTCAACTAACGCACGTAAAGGT
AAACGAACAACATCTACAATGGCTTCACAGCAGCCAAGACAATTGGATAATAAGATCAAA
GCTCAATAA
>g8977.t1 Gene=g8977 Length=302
MQVDLESIGKWNYDISEVKPNYSYMFDFEAHFTHQKTRLWMQENWTYVFWYSGIYMIVIF
AGQQFMANRPRFELRGLLVLWNSMLALFSIIGFTRTAPELIHVLKNFGLFHSVCVPSYIL
HDRVCGFWTWLFVLSKLPELGDTIFIVLRKQPLIFLHWYHHITVLMYSWFSYQEYTASAR
WFVVMNYCVHSLMYSYYALRAMKFNPPRFISMIITGLQLTQMIIGCAINIWAYDYLQTAG
HTCNISLTNIKFSIAMYASYFILFARFFHLTYLSTNARKGKRTTSTMASQQPRQLDNKIK
AQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8977.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 283 | 302 | - |
| 2 | g8977.t1 | PANTHER | PTHR11157 | FATTY ACID ACYL TRANSFERASE-RELATED | 21 | 281 | 1.1E-93 |
| 3 | g8977.t1 | PANTHER | PTHR11157:SF17 | ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN | 21 | 281 | 1.1E-93 |
| 1 | g8977.t1 | Pfam | PF01151 | GNS1/SUR4 family | 40 | 278 | 4.9E-68 |
| 17 | g8977.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 47 | - |
| 21 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 48 | 66 | - |
| 15 | g8977.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 67 | 77 | - |
| 25 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 97 | - |
| 19 | g8977.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 98 | 108 | - |
| 26 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 133 | - |
| 14 | g8977.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 134 | 152 | - |
| 22 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 172 | - |
| 16 | g8977.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 173 | 177 | - |
| 24 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 197 | - |
| 13 | g8977.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 198 | 208 | - |
| 20 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 232 | - |
| 18 | g8977.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 233 | 251 | - |
| 23 | g8977.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 252 | 273 | - |
| 12 | g8977.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 274 | 302 | - |
| 10 | g8977.t1 | ProSitePatterns | PS01188 | ELO family signature. | 153 | 161 | - |
| 5 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 67 | - |
| 8 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 94 | - |
| 4 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 172 | - |
| 6 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 176 | 198 | - |
| 9 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 210 | 232 | - |
| 7 | g8977.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 252 | 274 | - |
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:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K10203 (elongation of very long chain fatty acids protein 6)
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.
