Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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_3 g428 g428.t5 TTS g428.t5 3319495 3319495
chr_3 g428 g428.t5 isoform g428.t5 3319589 3320950
chr_3 g428 g428.t5 exon g428.t5.exon1 3319589 3320885
chr_3 g428 g428.t5 cds g428.t5.CDS1 3319589 3320881
chr_3 g428 g428.t5 exon g428.t5.exon2 3320947 3320950
chr_3 g428 g428.t5 TSS g428.t5 3321022 3321022

Sequences

>g428.t5 Gene=g428 Length=1301
AAAAAAACATGTTTGATGATTGGAATAATTTGCCAGACAACGTAACAAGAGAGATATTTT
CATATTTGAATTTTAAAGATTTATTTTTAAATGCATCATTTGTTTGTCAAAGTTGGTACG
ATTATATTGGAAAAAGCAAAGAATGTATGGATAAAGTTCGGTTAAAAATAGAAGGATGGC
ATGATTTAGAAATTATCTCTGATATTCTTTTACGAAATAGTCCTCGAATTTACAATTCCT
TGATATTCTACAATTTAAATGCTGAGAAGAAATTTCCTTATTTATTGCAACGAAGATGGA
AAGATGTTAAGCTTACACAAATGAAATTCATCTCAGCTAAAAAGTTCTATGAATATTTAA
AAGAGTTTGGCGAGGATCTTGAATCACTTGAAATTGAGAGAATTGTAATAATCAAAGGCG
ATGAAATGTGCGATCAAACACTTGTGTTACCAAAATTAAGACACCTTAAACTAAAGCAAG
TTCCAACATCAGCTTTTCAAGTATTTCAACGATACCCAAACATAAAATCACTACATTTCG
ATATACCTGCATTTGGTTCAAAACGAAGAGAAGATATTACTGATTTCTTTGAGAAGTTTC
GTGATGTAAATTTAAAACAACTCACAATATGTAGAAATTCTCTTTACGGTTTACCAGAGA
CTGCTCATAAATTAATCGAGTCAATCATCATCTCAATGACAGCTACACTAGATTATATTG
AATTGAAAAATTGGGGATATTGTCATACTCTTGAATGCATTTGGAATGCTATGAAAGCAA
AATATTTTTCAATTAATGTTTGCTCACATGTGCCAATTACAAGAAATTTATTAGATTTGT
CCCCAAATACATATCTAAAGAGTTTTACATTATCACTTCTTATTGAACCTGAAATTGAAT
GGTTTAAAAGATTATTCTTACTGACACCAAATTTAGAGGAATTAAAAATATCACTCATTA
GAAAAGAAGTTGTTTACTTAGCTGCTCATTATTTGCGAAAATTAAAAGTGCTCTCATATA
AATCCTGCATTATTGAAGTAGCATGTGAAGAACATGAACTTGATGAATTTTCAGAAGAAG
AAGAAGACAGTGATCCAGGATCGAATTATAATTTTTTAGGTCCAAATGAAGTGTTTGAAT
TGAGTAAATTTAATGAACGTCCGAATATGGTGAAAAGATATAAAGATGAGAAATTAAGCA
TAGATTTTGCATATGTTTATTATCGAGAGTTGATTAGTCGAGAAACAAACATAAATCAAC
ATATTAGACTTGAAAAGCTCTCATTTGATAATTGGAAATAA

>g428.t5 Gene=g428 Length=430
MFDDWNNLPDNVTREIFSYLNFKDLFLNASFVCQSWYDYIGKSKECMDKVRLKIEGWHDL
EIISDILLRNSPRIYNSLIFYNLNAEKKFPYLLQRRWKDVKLTQMKFISAKKFYEYLKEF
GEDLESLEIERIVIIKGDEMCDQTLVLPKLRHLKLKQVPTSAFQVFQRYPNIKSLHFDIP
AFGSKRREDITDFFEKFRDVNLKQLTICRNSLYGLPETAHKLIESIIISMTATLDYIELK
NWGYCHTLECIWNAMKAKYFSINVCSHVPITRNLLDLSPNTYLKSFTLSLLIEPEIEWFK
RLFLLTPNLEELKISLIRKEVVYLAAHYLRKLKVLSYKSCIIEVACEEHELDEFSEEEED
SDPGSNYNFLGPNEVFELSKFNERPNMVKRYKDEKLSIDFAYVYYRELISRETNINQHIR
LEKLSFDNWK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g428.t5 Gene3D G3DSA:1.20.1280.50 - 4 46 0.0000000
5 g428.t5 Gene3D G3DSA:3.80.10.10 Ribonuclease Inhibitor 52 356 0.0000007
1 g428.t5 Pfam PF00646 F-box domain 4 41 0.0000000
7 g428.t5 ProSiteProfiles PS50181 F-box domain profile. 2 50 11.0340000
4 g428.t5 SMART SM00256 fbox_2 8 49 0.0021000
3 g428.t5 SUPERFAMILY SSF81383 F-box domain 2 46 0.0000000
2 g428.t5 SUPERFAMILY SSF52058 L domain-like 140 343 0.0000007

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein binding MF

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.

Raw TPM values