General information for g5973.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5973 is located on chr_2: 13112492..13117401 (+ 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 | g5973 | g5973.t6 | TSS | g5973.t6 | 13111511 | 13111511 |
| chr_2 | g5973 | g5973.t6 | isoform | g5973.t6 | 13111710 | 13114233 |
| chr_2 | g5973 | g5973.t6 | exon | g5973.t6.exon1 | 13111710 | 13113031 |
| chr_2 | g5973 | g5973.t6 | cds | g5973.t6.CDS1 | 13112492 | 13113031 |
| chr_2 | g5973 | g5973.t6 | exon | g5973.t6.exon2 | 13113652 | 13114233 |
| chr_2 | g5973 | g5973.t6 | cds | g5973.t6.CDS2 | 13113652 | 13114233 |
| chr_2 | g5973 | g5973.t6 | TTS | g5973.t6 | NA | NA |
Sequences
>g5973.t6 Gene=g5973 Length=1904
TGTAAATAGAAGATGGTGTTTTTTATATTTATTTTCATTAAAACTTGTTAAATACTTTTA
ATTACTATCAAACGTTTGTAGAATTAGATAGTAGCTTTGAAGAATGTACAATGAATTGTT
GTGGAATTCGTCAATAGTGTGAAAATAGTCATATTTTGATATCACTCGCTTATCTGGCAA
GTTTTTGTCATTTTTCTTTATTTCGGTCATTGATCGATGGTGATTCATGCCTTTTTATAG
ATTATTTTTAGTCTTTCATAACTTTATTGTCATACAGTATCATATTCTAGTATGAAAAAT
TTTATTTTAGCATTGGCGCATTTCATTATAAAAAAATCTTTACTATTTCTCTCTCTGATT
GAAAAAAAGTCATGTATATTGTGACCTTGAGAAGGGAAAAAACAAAACATATTGCGAGTT
GATGACTAACTTTTTCATTTTATTTTGTTTTCTTTCTCTCTTGCTATGTGCATTAGCTTT
AAAACTTTTCTTTGTTTCTTTTCAAATGTGACACTTTTGTATAGGTAGTTTTTATTTCAT
AATCCATATTCAATTTATCCTCTCACATTATATATAATACTTAAATACACTCCTCCTCAT
ATTGTTTTATCATTTCATGCTTCTTTACATATACTCTTTTTAATGATTTTTTGTGGGTTT
AGCAAAGCAGAAATAAACAAACATACCTAGTGATATACATAGTATTAAAATGAAACAATA
GAAGTAAAGTAAGGAACAAAAGCTAATTAGAAGATTGAAGCTGTGAATTTTTGAAGCAAA
GAATGAATAAATATAAAGACACTACAATGGAGTTATCATCGCCTTATGCAATTGTAATCG
AAGATCGAGCTCATGCAATATTAAATATTCCTGATGCAGGACCAGAGCATAATATTGAAT
TATGTAGAGGCACAATGATTGAAATCATAAAACCAAGCAGTCAAAACTATTACACAATCA
TGATACATGATTATCATCAAAAGAATTTGGCGTTTGAAAACAATTTATATAAAATAAAAG
CAAGTGTTTTTTGCATTGTACCAAAAGAAATTTGGCCATTTCTTATTGCCATCACCGATT
CAATTGATAGAGCAAATATTTCTATGGACGAAGCCTTCATCGATTATATACTAAATTTGA
GAATCAAGGGTTTTGTTTCTGTCAATTCACAATACTTTGGTATGTGCCCTATTCGACAAT
CACTACAATTTTTACCAGATCGAGAGCCACGAGATAAATCAAATGAATATAATTGCATAA
TTCGTTACATCGGACCTGTGAAAGAGATTGGTCCAGGCTACTTCTTTGGTTTAGAGCTAT
TGAACCTTAATAAAGGACATTCACCACAAGAGTTGGAAATAAAAAGTTTTTCAAAAAATT
ACATCGACTGTGATTCAAATCTTGCATTTATTTTACCAGTGAACTTCATTCGAAAACCAA
AAGGATTGAAAAAGAATTCAACTCGTTCGGCAATTGGGAACATCCTTTGTGGTCTAAAAG
AAAAAGTAAAACCACAAAAAAATACATTGACGAGACATTCCTATATAGATTCGTCCGTTA
CTGATTCTGCCAGTGAACGTTCATCTTCTTCAACAAGCAAGCGTCCCTTGACACCAGAAT
TGGTGAATGATAATAAGAATGGTATGATGAATGTTAATAAATTTCCATCGTCAATCTCTA
GTCCAAATTTGGCGAAACAAGACAGCGCTTCATCGTCAACTACAAGCGGTTCTGCAAGAG
TCATTAGCAATAGTGGTTTCGATTTGATTAATTTGTCAGAGGATTACAGTCAAATTGTTG
CAGAACGTGAATCCAAAATGGAAGAAAGAAGAATGTTGGGCTCAAGAGGAACTCAAACAT
TGAGTGGTGGAAGCAACAACATTGAATCACGTACGACTCCGAAA
>g5973.t6 Gene=g5973 Length=374
MNKYKDTTMELSSPYAIVIEDRAHAILNIPDAGPEHNIELCRGTMIEIIKPSSQNYYTIM
IHDYHQKNLAFENNLYKIKASVFCIVPKEIWPFLIAITDSIDRANISMDEAFIDYILNLR
IKGFVSVNSQYFGMCPIRQSLQFLPDREPRDKSNEYNCIIRYIGPVKEIGPGYFFGLELL
NLNKGHSPQELEIKSFSKNYIDCDSNLAFILPVNFIRKPKGLKKNSTRSAIGNILCGLKE
KVKPQKNTLTRHSYIDSSVTDSASERSSSSTSKRPLTPELVNDNKNGMMNVNKFPSSISS
PNLAKQDSASSSTTSGSARVISNSGFDLINLSEDYSQIVAERESKMEERRMLGSRGTQTL
SGGSNNIESRTTPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5973.t6 | Gene3D | G3DSA:2.30.30.190 | - | 147 | 225 | 3.0E-5 |
| 2 | g5973.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 318 | - |
| 3 | g5973.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 248 | 318 | - |
| 4 | g5973.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 344 | 374 | - |
| 1 | g5973.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 354 | 374 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5973/g5973.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5973.t6.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.
