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 g2752 g2752.t5 TTS g2752.t5 19983690 19983690
chr_3 g2752 g2752.t5 isoform g2752.t5 19984409 19985953
chr_3 g2752 g2752.t5 exon g2752.t5.exon1 19984409 19985010
chr_3 g2752 g2752.t5 cds g2752.t5.CDS1 19984994 19985010
chr_3 g2752 g2752.t5 exon g2752.t5.exon2 19985092 19985953
chr_3 g2752 g2752.t5 cds g2752.t5.CDS2 19985092 19985953
chr_3 g2752 g2752.t5 TSS g2752.t5 19986036 19986036

Sequences

>g2752.t5 Gene=g2752 Length=1464
ATGTCATCGGATGAAGAAACAGAAGTGATAAGTTCATCACATAAAAAACTTTTGTCAGAA
ATCAATGACATCGTAAAATTTCAACATATTAAAAAGCCCAAAAGATCAGAACCGGCAATC
AAAAATGACGAATTTCATTTGGTGAAAACCAAAAATCTTCTTGACAATGAGAAAGCTGAA
GAAGGAGCGAAAAAGCGTGATAAAAAAAGTGTATCAATACAATCGGTTGCAAATATTGTA
CGAAAAACACCAACACAAAAGAAAATCAGCAATCAATTTCAAGACACTTTTAAACAATCG
AAAGTCCTCAATAAACCATTGGAAAAAGTATATGCCGAGAGAATTCAAAGATCTGTAGGC
TATGAAAATGTAAAAACAAGTTTATCTAGATGGGATGCAATAGTAACAAAAAATAAAAAT
GCTGATCAATTACGATTCCCAATAATACAAGAAAAGGCTCCTGTCGAGCATAAGAAAGCT
TTAGATTTTTCACAATTTAGATATAAAACTCAAATGATGAAAGAAATGGAAGAGATTCAC
AATCAATGTTTTCCAAAATTATCCGAAAATGAATCTAATGAACCTTCATCAGAACTCTTA
ACACTTGAAGAAATGAAAGAAAGGAGAAAAGAATTAGCAAGACTTAAATTAAGAGAATCA
CATCAAATAGCTAAAAAACGTTTGCAAGGAAAGATTAAAAGTAAAAAATATCATAGATTG
AAGAAAAAAGAGGAGATGAAAAAGAAACTCAAAGAGTTTGAAGAACTCAAAATATCAAAT
CCTGAAGCTGCCCTGAAAGAGCTTGAAAAAATTGAAAAAGAAAGAGTGAAAGAGCGAGCA
AGTCTTAGACATAAAAATACTGATAAGGGCTCAATATGATACGACAGCAAAAAAAGAACT
TGAAGCACAGTTGGCACTTGGTCGTGAATTAACTCAAAAAGATAAGCAAAGTGATTCAAC
TGACTCTGATGAAGACGAGGTTTCAACAACTATCAATGATACAAAGGATACTGAAAATCC
ATGGCTTTCTAACAATGATAATAAAGAAATAGATCCACTCGATGATATTTTCAGTGGTTA
TAGAAAATTTTGGAAACAAAAGAATGAAAATGAAGAAGCATTACAGAGATTAAAGAAAGC
TTCTGCTTCTAATAGACAAGATGATGATCAAGAACAAGAAGAAATGTCTCTACATTCAAA
CCAAGAAGAAGCTTCGATAGGTCAAGGAAGTGACAGCGAATCTGACGATTCTAGTGAAAG
TGATGGCGACGAAACAAATGCATCAAATTTTATTAATGATTTATTTGATGCTGCTGAAGA
GAAAATAGAAGAGAAACTAGAATCAAAGATCAAAAATCTTAAACCGCATCTGATGGAAGC
AGATGCTGTAAAAACAAAAAATCATAAAGAAACTGTTAAAGGAAAGAAAAGAAAAAGAAA
TTTTGATGTTAATGATCCTCGTTA

>g2752.t5 Gene=g2752 Length=292
MSSDEETEVISSSHKKLLSEINDIVKFQHIKKPKRSEPAIKNDEFHLVKTKNLLDNEKAE
EGAKKRDKKSVSIQSVANIVRKTPTQKKISNQFQDTFKQSKVLNKPLEKVYAERIQRSVG
YENVKTSLSRWDAIVTKNKNADQLRFPIIQEKAPVEHKKALDFSQFRYKTQMMKEMEEIH
NQCFPKLSENESNEPSSELLTLEEMKERRKELARLKLRESHQIAKKRLQGKIKSKKYHRL
KKKEEMKKKLKEFEELKISNPEAALKELEKIEKERVKERASLRHKNTDKGSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g2752.t5 Coils Coil Coil 202 222 -
2 g2752.t5 PANTHER PTHR14150 U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 14 2 289 9.0E-48
3 g2752.t5 PANTHER PTHR14150:SF12 U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 14 HOMOLOG A-RELATED 2 289 9.0E-48
1 g2752.t5 Pfam PF04615 Utp14 protein 5 289 2.1E-47

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:0032040 small-subunit processome CC
GO:0006364 rRNA processing BP

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