General information for g5166.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Microsomal triglyceride transfer protein large subunit.
Parent gene
- The parent gene g5166 is located on chr_2: 7404054..7406339 (- 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 | g5166 | g5166.t2 | TTS | g5166.t2 | 7403012 | 7403012 |
| chr_2 | g5166 | g5166.t2 | isoform | g5166.t2 | 7403060 | 7406339 |
| chr_2 | g5166 | g5166.t2 | exon | g5166.t2.exon1 | 7403060 | 7403378 |
| chr_2 | g5166 | g5166.t2 | cds | g5166.t2.CDS1 | 7403060 | 7403378 |
| chr_2 | g5166 | g5166.t2 | exon | g5166.t2.exon2 | 7403436 | 7405525 |
| chr_2 | g5166 | g5166.t2 | cds | g5166.t2.CDS2 | 7403436 | 7405525 |
| chr_2 | g5166 | g5166.t2 | exon | g5166.t2.exon3 | 7405618 | 7405793 |
| chr_2 | g5166 | g5166.t2 | cds | g5166.t2.CDS3 | 7405618 | 7405793 |
| chr_2 | g5166 | g5166.t2 | exon | g5166.t2.exon4 | 7406281 | 7406339 |
| chr_2 | g5166 | g5166.t2 | cds | g5166.t2.CDS4 | 7406281 | 7406281 |
| chr_2 | g5166 | g5166.t2 | TSS | g5166.t2 | 7406490 | 7406490 |
Sequences
>g5166.t2 Gene=g5166 Length=2644
ATGGCATTTGAGTGTATTTGTAGAAAAATATTAATTTTTATGTGCCTCTTAACCGGTAAT
GAGCATTCACGCGTTTGAATTAGGAACAGAAAGAACATTTTCATTCGTTAATGATGTTAA
TTTGTATGAATTGAAACTATCAACAAGTCAGGCAATTGGCTATCGAACGTCCGGTGAAAT
AAAGGTCTCAACTATCTATGAAGATAATGAACATGGATTTTTATTACGATTCGAGCTTCT
ATCGCCGCAATTGTATATGGAAAAGTTTAAAGTTCAACCAATGGACTATGATGAAAAGTC
ATCGATTCTTGATAAATATAAGAAATCCATCTTTTACGCTTATTGGAAAGCAGGAATTAT
CGAAAAATCATTTATTAAAAATACCAAAGATTCATCGTTGAATAACTTTTTAAGGTCAAT
ATTGAGTCTCTTTCAATATCAACTTTTGGATACAAAAACAACTGAAAAAGATATTTCAGG
AACGTGTCAGGTTAAATATGTGGCAAAATCTTCAACCAAATTTCTAAAAATCAAGTCTGA
TTGCACTGCTATAGAGCAACATGAACGATTAGATCAACCGTTAGGGAATGAAGTAAAACT
TACGCGTGTAACAGTTATTGAAACTTCAACATTAGGAGAAATTGAAACTCTTCACAGTTC
TGATCATCATCAGTTCTATATCAATGCTTATAAACATGTCGGTTACAAAGTTGGCTCAAT
CTTTTATTTAAAATCTGATGGAACGATAAAAGATTGTGAAGTGATAAAAGCTGATAATTT
AGAAAATGCTATCAAGACATTAGAAGGATTTATTGAAACTTCTATACTGCCTGAAATTAA
TTTTGATAAGTCTACAGATGTGACAATAGTTAAACAATTGAAGGAATTGAAAGAGAATCT
TAGTAATGAAAAAGTTGGTAAGGAGACATCAGCTTTAGCTCTTTTAAAACTTTTGCAAAC
TGGAAGACAATCGAAAGCTGAAGATTTAATAAGAATTGTTAATGCAAGAACAACTAAAGA
GATTAAAGGACAGATAATGGATCTTTTAGCAGCAATTCAAACAGAAGAGTCACATGAAGC
ATTTAGAAGCACAATGAATTTTACAAACGAAGAAGAGTTTGATAATATTGAGAGATATTT
GCAGTCATTATCAGTTGGTGTTTTACCTCGTGAGTCAGTCATTAAAAACATCTTTGAAGT
ACTGATTAATGATAATATTCAAAATGAAAAACTCAAAGACACGCTCGTGCAGACTATTGC
ATCAATGTGTAAAAAATTCACTAATCTTCCAAACCAGAGTTATGACAGTGAAATTGTTGT
CAAGTTCAAAAACTTTTTACTTGAGTCTATCGATAGCTGTACTAATAATGATTGCAAAGA
AATTTACATACGTGGCCTTCAAAATCTTCAATCGCCAAATATTATTGATAAATTAGTCAT
GCTGGCACTAAATGAGCCATATCAAATTTCAGTAGCAGCAATGAAAGCACTCAATCAATT
TCCATCAACAATTTTGCAAGGTGACAAGAAGCAATTTGAGAGCATTTTTTACCAACAAAA
GAAAAAGTTTGATACAAGTGCACGAACAATTGCTTTAGATATTTTATTAAGACTTAAACC
GGAAACAAAAGATATCATGAATTTTGTTTCATATTTAAAATCAAATGATCCGGCATATGA
AGTCAAACAATATTTAGTACAAAAATTAAAAATGCTTGCAGAAAAATGTGAGAGATTTAA
AGAAATTTTGCAAATGGTGCTTTCGAGTGATCGAAAAGTATACAATTGGAATAATTTTGG
TGCTCTTAAAGGACTTTCAACTGCCTTGACTAGAAAGTTTTCTCAAAATCCTTCATTTAA
TGGTTCATTGATTAGTGTGCAAGAGATTAAAGGAGGTGTTTTGAAGAGAGGAAATGTTGA
CCTCCTTCTTGAACATGAAGAAGAGAAATTTGGAATTTTCACTCTCGGTCTCTTTGCTGG
TGGTCTTTCTTCATTTGTGAGTAGTGATGAGGAAGAAGTTGATCCAGATGAAGACACGAC
AGCAACGGCAGGAATGGAATTGGCAGTACAAGGAAATTATTTGAGACCTCTTGTGTTCTT
TTCTGGTCAAGCTCAATTGATGGGACATGTTTGGTCTGGTACAGCATCTGAACCGACATC
AGCATATCAAGGAATCACAATGTTACAAGATCATAAGCAAGTTTTTGCTTTAAATAATGG
TGCTATTCTTGATTTTTCATCACTTGGTGCAATGTCAATGGATTTAAATGGCAAGATTGA
AATCAGTTTATGGTATAAAAATGCCAATATTGAAGTTGTTCAAAATATGGGACTTGCATT
GCTCTCAACTCTTTCTGTGAAGTCGCCTCTAATTTCATCTAAAATTGAATTGTCAATTAC
TCAAGAGCCTCAAATTAATTTAGCATCAAAAGTTGATTTTTCATCGAAAACTGCAATATG
CATGCAACTGACACAACCAAATATAAATCTTACACAAAAAATTAATCGATATGTTGACAT
TCCAGAATCAAAGAAAGTGAAAGCACTTAGGCAGGAAGTTAATCTCAAATATAAAATTCC
AGGCTACACACATGTTTTAAATCAGAAAAATAATGATATGTGTAACGCAATAACGAGTGA
ATAA
>g5166.t2 Gene=g5166 Length=861
MSIHAFELGTERTFSFVNDVNLYELKLSTSQAIGYRTSGEIKVSTIYEDNEHGFLLRFEL
LSPQLYMEKFKVQPMDYDEKSSILDKYKKSIFYAYWKAGIIEKSFIKNTKDSSLNNFLRS
ILSLFQYQLLDTKTTEKDISGTCQVKYVAKSSTKFLKIKSDCTAIEQHERLDQPLGNEVK
LTRVTVIETSTLGEIETLHSSDHHQFYINAYKHVGYKVGSIFYLKSDGTIKDCEVIKADN
LENAIKTLEGFIETSILPEINFDKSTDVTIVKQLKELKENLSNEKVGKETSALALLKLLQ
TGRQSKAEDLIRIVNARTTKEIKGQIMDLLAAIQTEESHEAFRSTMNFTNEEEFDNIERY
LQSLSVGVLPRESVIKNIFEVLINDNIQNEKLKDTLVQTIASMCKKFTNLPNQSYDSEIV
VKFKNFLLESIDSCTNNDCKEIYIRGLQNLQSPNIIDKLVMLALNEPYQISVAAMKALNQ
FPSTILQGDKKQFESIFYQQKKKFDTSARTIALDILLRLKPETKDIMNFVSYLKSNDPAY
EVKQYLVQKLKMLAEKCERFKEILQMVLSSDRKVYNWNNFGALKGLSTALTRKFSQNPSF
NGSLISVQEIKGGVLKRGNVDLLLEHEEEKFGIFTLGLFAGGLSSFVSSDEEEVDPDEDT
TATAGMELAVQGNYLRPLVFFSGQAQLMGHVWSGTASEPTSAYQGITMLQDHKQVFALNN
GAILDFSSLGAMSMDLNGKIEISLWYKNANIEVVQNMGLALLSTLSVKSPLISSKIELSI
TQEPQINLASKVDFSSKTAICMQLTQPNINLTQKINRYVDIPESKKVKALRQEVNLKYKI
PGYTHVLNQKNNDMCNAITSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5166.t2 | Coils | Coil | Coil | 271 | 291 | - |
| 6 | g5166.t2 | Gene3D | G3DSA:2.30.230.10 | - | 9 | 212 | 5.4E-7 |
| 1 | g5166.t2 | PANTHER | PTHR13024 | MICROSOMAL TRIGLYCERIDE TRANSFER PROTEIN, LARGE SUBUNIT | 4 | 860 | 1.5E-196 |
| 2 | g5166.t2 | PANTHER | PTHR13024:SF0 | MICROSOMAL TRIACYLGLYCEROL TRANSFER PROTEIN | 4 | 860 | 1.5E-196 |
| 8 | g5166.t2 | ProSiteProfiles | PS51211 | Vitellogenin domain profile. | 6 | 626 | 10.75 |
| 5 | g5166.t2 | SMART | SM00638 | lpd_n | 6 | 551 | 4.2E-5 |
| 4 | g5166.t2 | SUPERFAMILY | SSF56968 | Lipovitellin-phosvitin complex; beta-sheet shell regions | 28 | 153 | 4.32E-9 |
| 3 | g5166.t2 | SUPERFAMILY | SSF48431 | Lipovitellin-phosvitin complex, superhelical domain | 263 | 580 | 1.96E-16 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5166/g5166.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5166.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005319 | lipid transporter activity | MF |
| GO:0006869 | lipid transport | BP |
| GO:0005548 | phospholipid transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14463 (microsomal triglyceride transfer protein large subunit)
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.
