General information for g3682.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Elongation of very long chain fatty acids protein 4.
Parent gene
- The parent gene g3682 is located on chr_3: 27395647..27397427 (- 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_3 | g3682 | g3682.t1 | TTS | g3682.t1 | 27394498 | 27394498 |
| chr_3 | g3682 | g3682.t1 | isoform | g3682.t1 | 27394647 | 27395770 |
| chr_3 | g3682 | g3682.t1 | exon | g3682.t1.exon1 | 27394647 | 27394892 |
| chr_3 | g3682 | g3682.t1 | cds | g3682.t1.CDS1 | 27394647 | 27394892 |
| chr_3 | g3682 | g3682.t1 | exon | g3682.t1.exon2 | 27394946 | 27395097 |
| chr_3 | g3682 | g3682.t1 | cds | g3682.t1.CDS2 | 27394946 | 27395097 |
| chr_3 | g3682 | g3682.t1 | exon | g3682.t1.exon3 | 27395173 | 27395196 |
| chr_3 | g3682 | g3682.t1 | cds | g3682.t1.CDS3 | 27395173 | 27395196 |
| chr_3 | g3682 | g3682.t1 | exon | g3682.t1.exon4 | 27395261 | 27395653 |
| chr_3 | g3682 | g3682.t1 | cds | g3682.t1.CDS4 | 27395261 | 27395653 |
| chr_3 | g3682 | g3682.t1 | exon | g3682.t1.exon5 | 27395710 | 27395770 |
| chr_3 | g3682 | g3682.t1 | cds | g3682.t1.CDS5 | 27395710 | 27395770 |
| chr_3 | g3682 | g3682.t1 | TSS | g3682.t1 | 27395811 | 27395811 |
Sequences
>g3682.t1 Gene=g3682 Length=876
ATGGCTTTAGTGATAAGACATGCTTTAGAAATTTATGGTGTTTTAAATAATGAATTAGAT
GATAAACGAGTTAAAAATTGGTTGTTCATGGCAAATCCGTTCAAACCAATTGCAATAATC
GGTATATATTTAATATTTGTTCTAAAATGGGGACCAAAGTTAATGGAAAATCGTCAATCA
TTCAAATTGGATAAAATAATAAAAATTTACAATCTTACGCAAGTTGTTATGTGTGCATTT
ATCACATTCGAAGCATTTAGGTACACATTTGCACGTGGTTATAGTATTTTTTGTCAACCT
GTTGATTATTCTATGGAGCCAGCTGCCTATAGAATCGCACAACTTGCTCATTACTATTTT
CTAACAAAAGTTCTTGATCTCATCGATACAGTTTTCTTTGTACTGAAAAAGAAAAATTCT
CATGTCTCTTTTCTTCATGTCTATCACCATGCTGGTATGGTAGCTCTTACCTGGATCGGT
ACAAAATATTTTGCTGGTGGACATTCAGTTTTTACAGGCTGGATTAATTCTCTAGTTCAT
GTCATTATGTACTTTTATTACTTCCTAACAACAGTTGATAACAAATACAAGCAAAGTTTT
TGGAAAAAATACATAACACAACTTCAAATGATACAATTTGGTATGATGGCATTGCACTGG
TTATTTTTGCTCCAATCCAAAGATTGTGGATTCCCAAAATTTATTTCTTTCTTTATGTTA
CCTCAAAATGCTTTTATTTTCATTCTTTTCTATGACTTTTATAGAAAAGCTTATGGTAAT
AAGAAAAAAACAAGTGAAGAAGAAATTTCAATAAAAAAGCCAGAATTGAATAATAATATT
GACCTCTCAAATGTAAAAAATGGAAAATCATATTAA
>g3682.t1 Gene=g3682 Length=291
MALVIRHALEIYGVLNNELDDKRVKNWLFMANPFKPIAIIGIYLIFVLKWGPKLMENRQS
FKLDKIIKIYNLTQVVMCAFITFEAFRYTFARGYSIFCQPVDYSMEPAAYRIAQLAHYYF
LTKVLDLIDTVFFVLKKKNSHVSFLHVYHHAGMVALTWIGTKYFAGGHSVFTGWINSLVH
VIMYFYYFLTTVDNKYKQSFWKKYITQLQMIQFGMMALHWLFLLQSKDCGFPKFISFFML
PQNAFIFILFYDFYRKAYGNKKKTSEEEISIKKPELNNNIDLSNVKNGKSY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3682.t1 | PANTHER | PTHR11157 | FATTY ACID ACYL TRANSFERASE-RELATED | 3 | 260 | 7.0E-98 |
| 3 | g3682.t1 | PANTHER | PTHR11157:SF21 | ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN | 3 | 260 | 7.0E-98 |
| 1 | g3682.t1 | Pfam | PF01151 | GNS1/SUR4 family | 29 | 264 | 1.2E-58 |
| 17 | g3682.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 26 | - |
| 26 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 27 | 48 | - |
| 14 | g3682.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 49 | 68 | - |
| 23 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 90 | - |
| 19 | g3682.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 91 | 114 | - |
| 22 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 135 | - |
| 12 | g3682.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 136 | 146 | - |
| 25 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 147 | 165 | - |
| 18 | g3682.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 166 | 170 | - |
| 21 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 192 | - |
| 15 | g3682.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 193 | 203 | - |
| 20 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 222 | - |
| 16 | g3682.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 223 | 233 | - |
| 24 | g3682.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 234 | 254 | - |
| 13 | g3682.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 255 | 291 | - |
| 11 | g3682.t1 | ProSitePatterns | PS01188 | ELO family signature. | 142 | 150 | - |
| 9 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 26 | 48 | - |
| 8 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 91 | - |
| 5 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 135 | - |
| 4 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 160 | - |
| 10 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 192 | - |
| 7 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 205 | 224 | - |
| 6 | g3682.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 234 | 253 | - |
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 K10249 (elongation of very long chain fatty acids protein 4)
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.
