Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative HBS1-like protein.

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_1 g9652 g9652.t4 TSS g9652.t4 4483832 4483832
chr_1 g9652 g9652.t4 isoform g9652.t4 4483931 4485930
chr_1 g9652 g9652.t4 exon g9652.t4.exon1 4483931 4483970
chr_1 g9652 g9652.t4 exon g9652.t4.exon2 4484039 4484470
chr_1 g9652 g9652.t4 exon g9652.t4.exon3 4485416 4485930
chr_1 g9652 g9652.t4 cds g9652.t4.CDS1 4485444 4485929
chr_1 g9652 g9652.t4 TTS g9652.t4 NA NA

Sequences

>g9652.t4 Gene=g9652 Length=987
ATGTCACGACATAGAAATGTTAGGAATACGGCATACGATGATTATGACGACGACGATATT
GTTGGAAGTGTATCTGATGAGCCTGAATGCATATCTCCTACAGATGCTAAACAATGGATA
TTTGATAGAGCAAAGGGTCAATCTAGTTTAGAGCAGTTTCTTTCGAAAAATGAAGACATA
CAAGAGGAAGTAGAAGAGAATAATGATGATAGGAACATTTTTGATGGAAAAGTAAGACGA
GATTCAGAACATTATCAATTGCCTGATTTAAATGATATCGATAAAAGTAAACTGCTCTCA
TGCATGGAAGAAATCCGAAACATCATTGGAGAGACTTACTCAGATAAACGATTAGTGGAA
GCTATTATGTCCAATAATTTTAATTTTGACAAGGCACTCGATTGTCTACTTAATGGAGAA
AACAACAATACACAACAACAACGATCGAAAACTACAGAGACTATAGAGAAAGCAATGTTT
TGTATGAAAAGTCACAACAAATGAAACAGCAAAGGACTAAATTGACTATTAAAATAACTC
CAGCATCGAAAATTAAGACATCAGGTTTTGAGATTAGTTCGCCAAAAGTGCAATCGCCAA
AAACACAATCACCTTCTGGATCTGGAAGAAATTCTCCTGATGAAGAACAAAACAAATCAA
ATCGAACGAAAGAAGCATTAAGAAATGCGCGAGAACTTTATGAAAAGGAACGTGGATCTG
AAAAGGAACAACTTCATTTAGTTGTTATTGGTCATGTTGATGCAGGCAAATCTACAATGA
TGGGTCATTTATTATATGATCTAGGAAATGTTCCACAACGTTTGATGCATAAATATGAAC
AAGAGAGCAAAAAATTAGGTAAACAAAGTTTTGCTTTTGCTTGGGTGCTTGATGAAACAG
GTGAAGAAAGAACGAGAGGTATCACAATGGATTGTGGTTTGCAGAGATTTGAAACCCCAA
CAAAACAAGTTACACTTCTTGATGCTC

>g9652.t4 Gene=g9652 Length=162
MKQQRTKLTIKITPASKIKTSGFEISSPKVQSPKTQSPSGSGRNSPDEEQNKSNRTKEAL
RNARELYEKERGSEKEQLHLVVIGHVDAGKSTMMGHLLYDLGNVPQRLMHKYEQESKKLG
KQSFAFAWVLDETGEERTRGITMDCGLQRFETPTKQVTLLDA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g9652.t4 Coils Coil Coil 50 77 -
8 g9652.t4 Gene3D G3DSA:3.40.50.300 - 46 162 2.3E-32
5 g9652.t4 MobiDBLite mobidb-lite consensus disorder prediction 1 71 -
6 g9652.t4 MobiDBLite mobidb-lite consensus disorder prediction 1 47 -
7 g9652.t4 MobiDBLite mobidb-lite consensus disorder prediction 48 71 -
2 g9652.t4 PANTHER PTHR23115:SF188 HBS1-LIKE PROTEIN 24 162 7.2E-53
3 g9652.t4 PANTHER PTHR23115 TRANSLATION FACTOR 24 162 7.2E-53
1 g9652.t4 Pfam PF00009 Elongation factor Tu GTP binding domain 78 162 6.1E-15
10 g9652.t4 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 75 162 21.624
4 g9652.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 65 162 4.07E-23

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:0005525 GTP binding MF
GO:0003924 GTPase activity 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