General information for g4255.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4255 is located on chr_2: 684526..688043 (- 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 | g4255 | g4255.t1 | isoform | g4255.t1 | 684526 | 688043 |
| chr_2 | g4255 | g4255.t1 | exon | g4255.t1.exon1 | 684526 | 685029 |
| chr_2 | g4255 | g4255.t1 | cds | g4255.t1.CDS1 | 684526 | 685029 |
| chr_2 | g4255 | g4255.t1 | exon | g4255.t1.exon2 | 685173 | 685504 |
| chr_2 | g4255 | g4255.t1 | cds | g4255.t1.CDS2 | 685173 | 685504 |
| chr_2 | g4255 | g4255.t1 | exon | g4255.t1.exon3 | 686359 | 686709 |
| chr_2 | g4255 | g4255.t1 | cds | g4255.t1.CDS3 | 686359 | 686709 |
| chr_2 | g4255 | g4255.t1 | exon | g4255.t1.exon4 | 686843 | 687127 |
| chr_2 | g4255 | g4255.t1 | cds | g4255.t1.CDS4 | 686843 | 687127 |
| chr_2 | g4255 | g4255.t1 | exon | g4255.t1.exon5 | 687212 | 688043 |
| chr_2 | g4255 | g4255.t1 | cds | g4255.t1.CDS5 | 687212 | 688043 |
| chr_2 | g4255 | g4255.t1 | TSS | g4255.t1 | NA | NA |
| chr_2 | g4255 | g4255.t1 | TTS | g4255.t1 | NA | NA |
Sequences
>g4255.t1 Gene=g4255 Length=2304
ATGGGATCCAAAATTAAAATACCGCATGGCGCGAGCCAACAAAAATTGGATGTGTTTCTA
TCACCTAGTCGCTTTAAAAAGCGTGTTTATGACGATCTCCAAGATGAAGATGAAGGCTCT
TCCTGTTCGCCTAGTCCATTAAAGGTGACAAAAACATTTAATAAGACTAATTATCAAAAA
ATATCCACAGAAAAATTCCCGCCATTAATTGTTTTTGGACAAAGCATTTCTAAAATACAA
GAAGTTACAAATTCAATAGGAAGTTCAAATGTTCAGTTTAAACTCGTTAAAGAAGGAATC
AAAGTGTTTGTTAGCACCAATTCTGATTTTGTAAAAATCCAAGAATCATTTGCAAAAAAT
TCATTTCATTATTACACTCATCAACTTCGTGAAGAACATTTCTCAAAATTCGTCATCCAT
GGCCTGCCTAAGCTTGAGATTGACATAATTAAACAAGCGTTAGTAAGCGCTAAATTAAAT
CCAGTCACCATCAAAGATCTAAACATCAAAAAGAAAAATTATGATGAACATTGGGTTTAC
TTTGTGTCGTTCTATAAGAAAAAAAAGATTACGCTGATTGATCTTCAAGATGTCAAAACT
ATCAATCACATTCGCATCTCTTGGCAAAACTTTCGCCATACAAGGAAAGGTCCTACACAA
TGTATGAATTGTTTTCGATATGGTCACGGCACTGCAATTTGTCATTTAATATCTCGATGT
ATCAGGTGTGCTGGCGATCATAAGTCTAAGGAGTGTCCTCTTATACAAGTCCCTGATGGT
GAAACGCTCTCAAAAATAGCTACAACAAAACTTAAGTGCGCATTATGTGGAGCCAAAAAA
TCAGCTAAATTTCAACATGCTGCACAATTAGAGGAATTCCAGTTCCTATTCCTTCCAAAT
TCCCAGGGTCCAGCCTGGACAAAACCTCCCTACCAATCGGCTATTCCATTAGCCAGGCAT
CCCAAAGCTCAACAAAATTCAAACGTACTATATTCACATGATGAACTGTTCAAAATTTTC
ATGGATATTACAACACAACTCTCTGGTGCTAGAACAAAGCAAGAGCAAATTCAAATTATG
ATGTTGGTTGCCATCAAATATGCAGTGCCTTACAATGACACACATAGACTTCCAGCAGAT
TCTGATTACAGAATTTATCGTGCTGACAGAAGCAATCATGACAAGGGTGGAGTTGCATTG
TTCGTTCACAAATCAATTGTACACAGTCTTCTACCTTCACTACACACTAAATACATTGAG
AACATAGGGATATCAATCATGGTAACTAATAATAATTCCATCAATATTTATTCTATTTAC
GTTCCAGGACGAGGTGATACTAATCAAGTCAATTCGCACTTCATAAACGATATCAGGAAA
CTCACCAACGGCAGAACGAGCTTCTTTGTATGTGGTGATTTCAATGCTAAGCATCAGTAT
TGGAATTGCACTAGAGCAAACAATGCTGATCTAGCAAGCGACCATCGCGCAGTGACATTC
ACAATTGATGCTTCAGTCGAACTGGGTTTCCGACCCAAGACATTCCTTGATTTCTCCAAA
GCCAATTGGAATAAATTCCAAGATTTCATACACAATAACCTCGATACTTCCTATCAAATG
ACAGAAAAACAACATATTGATGATTATATAAATCAATTTACAAAAACTATCCTAGACGCT
CAGCATAAAGCAGTTCTACTTAAGACCTGTTCCAACTACAAGCTAAACCTTCCAGATGAC
CTTATCGAAAAGATTAAAATTAAAAATACAATGAAGAGAAGATGGCAAAGATCTCGTGAC
AACCGCGATTCAAATATTCCTCCAATTAAAACTGCAGATGGTATTCAAAATACTCCCGAA
GAAAAAGCCAACAAGATAGCGGAAGTTTTAGAATCAAATCATCTAAACCCACTTGAAAGA
AGTTCTCCGGACTTCACTTCCCTAATTAAAAATAAGGTCTCTGGCCTTAGGCAACCATTG
CCAGCAAACGAATTGCCAACTTTCACTGATGCCGATAAAATATTTTCAATCATTCAAAAT
CTGAAAAATCCCAAATGTCCTGGTACTGATCAAATCTCAAATCGACTCATTAAGAAACTA
CCACGTCGCAGTATTATTCATTTAGTCAACATTGTAAATGCTTGTCTTCAATTAAATTAC
TTTCCCAACAAGTGGAAATTTGCAAAAGTTATCCCAATTCCAAAACCAGGAAAAGTAAAA
TCAAATCCTACATCGTACAGACCTATTTCGCTCCTCAGTTCGCTGAGCATAATACTTGAA
AAAGTTATTCTTGTTCGTTTGTAA
>g4255.t1 Gene=g4255 Length=767
MGSKIKIPHGASQQKLDVFLSPSRFKKRVYDDLQDEDEGSSCSPSPLKVTKTFNKTNYQK
ISTEKFPPLIVFGQSISKIQEVTNSIGSSNVQFKLVKEGIKVFVSTNSDFVKIQESFAKN
SFHYYTHQLREEHFSKFVIHGLPKLEIDIIKQALVSAKLNPVTIKDLNIKKKNYDEHWVY
FVSFYKKKKITLIDLQDVKTINHIRISWQNFRHTRKGPTQCMNCFRYGHGTAICHLISRC
IRCAGDHKSKECPLIQVPDGETLSKIATTKLKCALCGAKKSAKFQHAAQLEEFQFLFLPN
SQGPAWTKPPYQSAIPLARHPKAQQNSNVLYSHDELFKIFMDITTQLSGARTKQEQIQIM
MLVAIKYAVPYNDTHRLPADSDYRIYRADRSNHDKGGVALFVHKSIVHSLLPSLHTKYIE
NIGISIMVTNNNSINIYSIYVPGRGDTNQVNSHFINDIRKLTNGRTSFFVCGDFNAKHQY
WNCTRANNADLASDHRAVTFTIDASVELGFRPKTFLDFSKANWNKFQDFIHNNLDTSYQM
TEKQHIDDYINQFTKTILDAQHKAVLLKTCSNYKLNLPDDLIEKIKIKNTMKRRWQRSRD
NRDSNIPPIKTADGIQNTPEEKANKIAEVLESNHLNPLERSSPDFTSLIKNKVSGLRQPL
PANELPTFTDADKIFSIIQNLKNPKCPGTDQISNRLIKKLPRRSIIHLVNIVNACLQLNY
FPNKWKFAKVIPIPKPGKVKSNPTSYRPISLLSSLSIILEKVILVRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4255.t1 | Gene3D | G3DSA:3.60.10.10 | - | 349 | 492 | 1.2E-16 |
| 5 | g4255.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 593 | 618 | - |
| 2 | g4255.t1 | PANTHER | PTHR47510 | - | 589 | 767 | 8.8E-12 |
| 3 | g4255.t1 | PANTHER | PTHR47510:SF1 | - | 589 | 767 | 8.8E-12 |
| 1 | g4255.t1 | Pfam | PF14529 | Endonuclease-reverse transcriptase | 434 | 504 | 2.2E-8 |
| 4 | g4255.t1 | SUPERFAMILY | SSF56219 | DNase I-like | 376 | 503 | 3.14E-15 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
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.
