General information for g14126.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable RNA-directed DNA polymerase from transposon BS.
Parent gene
- The parent gene g14126 is located on chr_1: 34820203..34822065 (+ 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_1 | g14126 | g14126.t1 | isoform | g14126.t1 | 34820203 | 34822065 |
| chr_1 | g14126 | g14126.t1 | exon | g14126.t1.exon1 | 34820203 | 34822065 |
| chr_1 | g14126 | g14126.t1 | cds | g14126.t1.CDS1 | 34820203 | 34822065 |
| chr_1 | g14126 | g14126.t1 | TSS | g14126.t1 | NA | NA |
| chr_1 | g14126 | g14126.t1 | TTS | g14126.t1 | NA | NA |
Sequences
>g14126.t1 Gene=g14126 Length=1863
ATGGGGGGTGTTTTATTGTTGATTAGGAATTCAATTCCTCATAAATTCTATTCAAACATT
TCATATGATTATGCTGAGGGAGTTTCAATAAAGATTGCAAACTCATTCATTGTATCTTCA
ATTTACTGTTCTCCATCAGTATCTAGAAACAAATCAAAAATTTTTTTTAAGAAATTGTCA
GAAATTCCTGGTCCTCATTTAATTGGAGGAGATTTCAATGCAAAGAATATTAGCTGGAAC
AATTCTAGTTCCGATCTAAAAGGATCTGATATATTCAATATATTTTCAAATAAAAATTAT
AAATTTCATTCTCCTGACTCAGTAACTCATATTCCATATATAGGTAATCCATCTTGTATT
GATTTTGCAATTTCAAGAAATGTCTCGGGAATCACTAATTTAAAAGTGATTAATGATTTA
TCTTCTGATCACCTACCAATCATATTTAAGATTAATTCTCATATAAGTAAAAATGAATCA
TTTGCATTCAACTTCAAAAAAGCTAATTGGAAGAAAATTAATGAGTTTGTACATATAAAT
TGCCTAGCTATAAATAATAATATAATTTCAAATAGAAATATTGATGAATGTATTTTGCAA
ATTGAGAAATTGTTGAAAAATTCTTTAATTAAGTTTGTTCCAAAAAAAAATAATAATCAT
TCAGTCAGGTATAAATACTCATCGGAGATAGATCTACTCATCAAAGAAAGAAATCATCTT
AGAAATCAGTATAAGAAAACAGCCATCAATCATTTTAGATCTCTGTTCTATCAAATTAAT
CGTCTTATTAGATCACGTATCGCTCAACACAAACTAGAGTTGTTCAAAGATAAATTAGCG
TCATTAAGTACAAGAGACAATTCCATTTTTAGTTTAACGAAAGCATTGAAAAAGAAAAAA
TGTTCTATACCACCTCTGATTGGTTCTAGTAATTTAGTATACTCAGATGAAGATAAAGCT
AATAGTCTGGCTAATACATTCAAAAATAATCATTTAATTGTAAATAGTATAGATCCTGTA
GTTAGAAGATCAATCAATAAAATTACTAACAATTTTGATTTATCTGTACCATTTGATGAA
GAGTCCATTGTTGATACTCTTTGCTCTCTGAATGTTAAGAAAGCCGTTGGTTTTGATAAA
ATCCCTAATATTCTGTTAAAGAATTTGGCTAATAATAAAAGATTTACTCAACTGCTTTAT
ATACTCTTCAATGAGTGCCTACAAAATGCCTATTTCCCAGATAGATGGAAAGTTGCTATC
ATTATTCCAATTCCTAAAACTAAAATACCCTCAGATGATCCTACACAGTACAGACCAATT
TCTCTGATTTCCTGTTTGGGAAAATGTCTAGAGAAGTTAATTCTTGATAGACTGAATAAG
TTTGAATCTGAAAATAACGTATTTATTAAAGAACAATTTGGCTTTAGGAAACGACATTCA
ACAACTCATCAATTGGTAAGATTAGTTGAATCGGCGTGCGTTGGTTTTAATTTAAAGAAA
AGCACTGCAATGGCTTTTCTTGACATTCACAAAGCTTTTGATACAGTGTGGCATGATGGC
ATACTTCACAAACTACTCCAGAATAAATATCCAATTTATCTCATTAAATTATTGAAATCG
TATTTAAGTAATAGATATGCGTTTGTTAGGATTAACAATTCAAGTTCTTGCCAATATGAG
ATAGCGGCTGGAGTGCCACAAGGCAGTCTTTTGGCTCCGCATCTGTTTAATGTTTTCTTA
AATGACATACCTTTACCAAAAAACGCAAAACTTTCAATTTTCGCTGATGATACAGCAATT
GCAATTGAGATTGGTTGGAAAAAACTAGAACTTGCAAAAAAAAAGACTTACGGAAGCTCT
TAA
>g14126.t1 Gene=g14126 Length=620
MGGVLLLIRNSIPHKFYSNISYDYAEGVSIKIANSFIVSSIYCSPSVSRNKSKIFFKKLS
EIPGPHLIGGDFNAKNISWNNSSSDLKGSDIFNIFSNKNYKFHSPDSVTHIPYIGNPSCI
DFAISRNVSGITNLKVINDLSSDHLPIIFKINSHISKNESFAFNFKKANWKKINEFVHIN
CLAINNNIISNRNIDECILQIEKLLKNSLIKFVPKKNNNHSVRYKYSSEIDLLIKERNHL
RNQYKKTAINHFRSLFYQINRLIRSRIAQHKLELFKDKLASLSTRDNSIFSLTKALKKKK
CSIPPLIGSSNLVYSDEDKANSLANTFKNNHLIVNSIDPVVRRSINKITNNFDLSVPFDE
ESIVDTLCSLNVKKAVGFDKIPNILLKNLANNKRFTQLLYILFNECLQNAYFPDRWKVAI
IIPIPKTKIPSDDPTQYRPISLISCLGKCLEKLILDRLNKFESENNVFIKEQFGFRKRHS
TTHQLVRLVESACVGFNLKKSTAMAFLDIHKAFDTVWHDGILHKLLQNKYPIYLIKLLKS
YLSNRYAFVRINNSSSCQYEIAAGVPQGSLLAPHLFNVFLNDIPLPKNAKLSIFADDTAI
AIEIGWKKLELAKKKTYGSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g14126.t1 | CDD | cd01650 | RT_nLTR_like | 432 | 614 | 0.000 |
| 7 | g14126.t1 | Gene3D | G3DSA:3.60.10.10 | - | 1 | 153 | 0.000 |
| 3 | g14126.t1 | PANTHER | PTHR33332:SF29 | - | 310 | 602 | 0.000 |
| 4 | g14126.t1 | PANTHER | PTHR33332 | - | 310 | 602 | 0.000 |
| 2 | g14126.t1 | Pfam | PF14529 | Endonuclease-reverse transcriptase | 38 | 148 | 0.000 |
| 1 | g14126.t1 | Pfam | PF00078 | Reverse transcriptase (RNA-dependent DNA polymerase) | 424 | 603 | 0.000 |
| 8 | g14126.t1 | ProSiteProfiles | PS50878 | Reverse transcriptase (RT) catalytic domain profile. | 405 | 620 | 18.244 |
| 6 | g14126.t1 | SUPERFAMILY | SSF56219 | DNase I-like | 2 | 152 | 0.000 |
| 5 | g14126.t1 | SUPERFAMILY | SSF56672 | DNA/RNA polymerases | 339 | 603 | 0.000 |
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.
