General information for g5931.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5931 is located on chr_2: 12893662..12895485 (- 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 | g5931 | g5931.t3 | TTS | g5931.t3 | 12892707 | 12892707 |
| chr_2 | g5931 | g5931.t3 | isoform | g5931.t3 | 12892708 | 12894641 |
| chr_2 | g5931 | g5931.t3 | exon | g5931.t3.exon1 | 12892708 | 12893914 |
| chr_2 | g5931 | g5931.t3 | cds | g5931.t3.CDS1 | 12892709 | 12893875 |
| chr_2 | g5931 | g5931.t3 | exon | g5931.t3.exon2 | 12894019 | 12894119 |
| chr_2 | g5931 | g5931.t3 | exon | g5931.t3.exon3 | 12894210 | 12894641 |
| chr_2 | g5931 | g5931.t3 | TSS | g5931.t3 | NA | NA |
Sequences
>g5931.t3 Gene=g5931 Length=1740
TCTTTTCGAAATTTCCTAATGTAGATCTTCGATGTAGAACTAAATTTGTTTATTTTTTCA
ACTTTTAGAAATTTAATGATTATTATTCTAGCAAACATACAATTATCAATAATAGATAAT
ATACTTAAAGAAAATCTTTTAAATAAAGAAAAATAATTTTAAATGAAAATAAATTAAGAT
TTAATATTTTCAACTTAATTTATTAACGTATAGAATGAAATTAAAAATATTATTTTCGAA
AGTTGAAAAGTTTTTGAGCTAAGGAAAAAGTCTTTAGCTAAGAAAAAAATAATTTCACGA
TAAATAATAGCTGTAAATAACGTTTTCTAGTTCTATATTGCTATATTTATCCTTAGCCAC
AGAGACAACACTCGATACATTAAAACTTTACGAGTTTCATTGTGAATTTTCAACATTTGC
GACGTAAAAAATATTGACCGCGCGACTATATCAAAAAGAAATCAAAGAATACGCTTATAA
TGGATTATTATATATTAAATAGTAGTTGTTTAAGTATCATTAATTTTAATGAGATAAACA
AAAGTTTCTTACGTTAAGCTTTGAATTTGACTATGGAATATTATAAAAATGTCCGTTCAC
GAGTTTCATCCTCTTCATCCCCACACGCTTTTTCGAGTAAACGCTTTTTTCGATCAGCAA
ACTTAATAAGAGAGTATAAAAACAATTTTCAATATTTTGAACGACACGATAATAGTTTCG
AACATACAAAAAGGAATCTAAAAGGATCAAATGTGAACAGTGATATTATTCAACATAACG
TGAATAGTAATGATAATGAAAATGTTAATCATAATAATAATAACAATTTGATATCTTACG
AACATTTAAGTGAATCGTGGATTGATTTAGTGTTACCCTTTACAATTTTGGCCATAACTA
TACTCGCAGTGGTGTTTATCGCTGCCATTTTATTTATTTGGATTCAAAAATACTTTCGCG
AAAAGCGTGAAAAAAGCCAAATTATTGAGGAAAAAATTCAACAATCAAAAATTTATTGCG
CAAAGAAAAAGTGCGAAAAAGTTAGTAATAATAATAATCGTAGTAAAATGAACAGTCGAA
AGTGGCTGAAAGAAAAATCAAAGCAAATTGCAAATCAAATTGTCAATGATGATATTGAGC
AGAAATTAGAAACAGTTGAGTTCAAGAGTACTCCACCGACATCACCAAACTCACAAAAAA
TAAACGAACAAAATGACGATGAAGATGATGAAGAGCAGCAGCAATTGCATGAGGACGATT
GTGAACAAATCAAGATATCTGAGATTAAAACTGAAAAAGAGACGAGTACTGCCACAATAA
TACAATGTCCATTGGCAATAAGTGACATTAGTATTGCCAGTACTATTCAACCTCAAATAT
TATCATCTGAGTTGTCATCACAAATACAACAAGTCGCCTCTTCGTCATCATCGCTCTCAT
TATTACAGGAAGAAGTGCATTGCGTACAACCAAGAGAGGAGCAATCACAAAAAATTTATA
AATCAATCGCAACTTCACCGCCTCCATTTAGTCCAATTGTTGCTCATCATCATGCGTTGC
ATCATAAATATGCAACGACAGGAACACAAACATATTTCACAAAAGCTCCCAATAGTCCAA
ATAATCTTTTAAGCTCATCATTCGCTGTTCTTCAAACTCCTACTAATGCATCGAGCGGTT
CATTTATACTTTCACCATCATACGATAATAAAGAAAATAAAGAACCATCATCTGCAAAAC
>g5931.t3 Gene=g5931 Length=389
MEYYKNVRSRVSSSSSPHAFSSKRFFRSANLIREYKNNFQYFERHDNSFEHTKRNLKGSN
VNSDIIQHNVNSNDNENVNHNNNNNLISYEHLSESWIDLVLPFTILAITILAVVFIAAIL
FIWIQKYFREKREKSQIIEEKIQQSKIYCAKKKCEKVSNNNNRSKMNSRKWLKEKSKQIA
NQIVNDDIEQKLETVEFKSTPPTSPNSQKINEQNDDEDDEEQQQLHEDDCEQIKISEIKT
EKETSTATIIQCPLAISDISIASTIQPQILSSELSSQIQQVASSSSSLSLLQEEVHCVQP
REEQSQKIYKSIATSPPPFSPIVAHHHALHHKYATTGTQTYFTKAPNSPNNLLSSSFAVL
QTPTNASSGSFILSPSYDNKENKEPSSAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g5931.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 195 | 229 | - |
| 2 | g5931.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 210 | - |
| 4 | g5931.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 389 | - |
| 6 | g5931.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 98 | - |
| 7 | g5931.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 124 | - |
| 5 | g5931.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 125 | 389 | - |
| 1 | g5931.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 121 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5931/g5931.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5931.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
