Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t5 TSS g9652.t5 4483832 4483832
chr_1 g9652 g9652.t5 isoform g9652.t5 4483931 4486373
chr_1 g9652 g9652.t5 exon g9652.t5.exon1 4483931 4483970
chr_1 g9652 g9652.t5 cds g9652.t5.CDS1 4483931 4483970
chr_1 g9652 g9652.t5 exon g9652.t5.exon2 4484039 4484470
chr_1 g9652 g9652.t5 cds g9652.t5.CDS2 4484039 4484470
chr_1 g9652 g9652.t5 exon g9652.t5.exon3 4485409 4485942
chr_1 g9652 g9652.t5 cds g9652.t5.CDS3 4485409 4485942
chr_1 g9652 g9652.t5 exon g9652.t5.exon4 4485999 4486373
chr_1 g9652 g9652.t5 cds g9652.t5.CDS4 4485999 4486372
chr_1 g9652 g9652.t5 TTS g9652.t5 4487132 4487132

Sequences

>g9652.t5 Gene=g9652 Length=1381
ATGTCACGACATAGAAATGTTAGGAATACGGCATACGATGATTATGACGACGACGATATT
GTTGGAAGTGTATCTGATGAGCCTGAATGCATATCTCCTACAGATGCTAAACAATGGATA
TTTGATAGAGCAAAGGGTCAATCTAGTTTAGAGCAGTTTCTTTCGAAAAATGAAGACATA
CAAGAGGAAGTAGAAGAGAATAATGATGATAGGAACATTTTTGATGGAAAAGTAAGACGA
GATTCAGAACATTATCAATTGCCTGATTTAAATGATATCGATAAAAGTAAACTGCTCTCA
TGCATGGAAGAAATCCGAAACATCATTGGAGAGACTTACTCAGATAAACGATTAGTGGAA
GCTATTATGTCCAATAATTTTAATTTTGACAAGGCACTCGATTGTCTACTTAATGGAGAA
AACAACAATACACAACAACAACGATCGAAAACTACAGAGACTATAGAGAAAGGCATTAGC
AATGTTTTGTATGAAAAGTCACAACAAATGAAACAGCAAAGGACTAAATTGACTATTAAA
ATAACTCCAGCATCGAAAATTAAGACATCAGGTTTTGAGATTAGTTCGCCAAAAGTGCAA
TCGCCAAAAACACAATCACCTTCTGGATCTGGAAGAAATTCTCCTGATGAAGAACAAAAC
AAATCAAATCGAACGAAAGAAGCATTAAGAAATGCGCGAGAACTTTATGAAAAGGAACGT
GGATCTGAAAAGGAACAACTTCATTTAGTTGTTATTGGTCATGTTGATGCAGGCAAATCT
ACAATGATGGGTCATTTATTATATGATCTAGGAAATGTTCCACAACGTTTGATGCATAAA
TATGAACAAGAGAGCAAAAAATTAGGTAAACAAAGTTTTGCTTTTGCTTGGGTGCTTGAT
GAAACAGGTGAAGAAAGAACGAGAGGTATCACAATGGATTGTGGTTTGCAGAGATTTGAA
ACCCCAACAAAACAAGTTACACTTCTTGATGCTCCTGGACATAAAGATTTCATACCTAAC
ATGATTTGTGGTGCAAATCAGGCTGATGTCGCAATACTCGTTGTTGATGCTACTCGTGGT
GAATTTGAAGCAGGTTTTGAGCAAGGAGGTCAAACAAGAGAGCATGCTTTACTTGTACGA
TCACTTGGTGTTAGTCAATTGTGTGTGGCTGTAAATAAATTAGACAACGAAAATTGGAGC
CAAGAACGTTTCAATGACATCATGACAAAACTCAAACAATTTTTGAAACAAGCAGGATTC
AAAGATTCCGAAGTTCATTATATACCTTGTTCAGGTCTTACAGGTGAAAACTTAGTTAAG
CCTTCGACTGAGCCCGCACTTAAAAGTTGGTATAATGGAAAAACATTATTAGAAGTTGTT
G

>g9652.t5 Gene=g9652 Length=460
MSRHRNVRNTAYDDYDDDDIVGSVSDEPECISPTDAKQWIFDRAKGQSSLEQFLSKNEDI
QEEVEENNDDRNIFDGKVRRDSEHYQLPDLNDIDKSKLLSCMEEIRNIIGETYSDKRLVE
AIMSNNFNFDKALDCLLNGENNNTQQQRSKTTETIEKGISNVLYEKSQQMKQQRTKLTIK
ITPASKIKTSGFEISSPKVQSPKTQSPSGSGRNSPDEEQNKSNRTKEALRNARELYEKER
GSEKEQLHLVVIGHVDAGKSTMMGHLLYDLGNVPQRLMHKYEQESKKLGKQSFAFAWVLD
ETGEERTRGITMDCGLQRFETPTKQVTLLDAPGHKDFIPNMICGANQADVAILVVDATRG
EFEAGFEQGGQTREHALLVRSLGVSQLCVAVNKLDNENWSQERFNDIMTKLKQFLKQAGF
KDSEVHYIPCSGLTGENLVKPSTEPALKSWYNGKTLLEVV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g9652.t5 CDD cd01883 EF1_alpha 248 459 1.19392E-133
14 g9652.t5 Coils Coil Coil 50 70 -
15 g9652.t5 Coils Coil Coil 219 246 -
13 g9652.t5 Gene3D G3DSA:1.10.8.10 DNA helicase RuvA subunit 90 145 1.1E-18
12 g9652.t5 Gene3D G3DSA:3.40.50.300 - 216 460 1.0E-89
17 g9652.t5 MobiDBLite mobidb-lite consensus disorder prediction 190 226 -
18 g9652.t5 MobiDBLite mobidb-lite consensus disorder prediction 190 216 -
3 g9652.t5 PANTHER PTHR23115:SF188 HBS1-LIKE PROTEIN 154 459 2.5E-145
4 g9652.t5 PANTHER PTHR23115 TRANSLATION FACTOR 154 459 2.5E-145
7 g9652.t5 PRINTS PR00315 GTP-binding elongation factor signature 248 261 8.7E-17
9 g9652.t5 PRINTS PR00315 GTP-binding elongation factor signature 307 315 8.7E-17
6 g9652.t5 PRINTS PR00315 GTP-binding elongation factor signature 327 337 8.7E-17
5 g9652.t5 PRINTS PR00315 GTP-binding elongation factor signature 343 354 8.7E-17
8 g9652.t5 PRINTS PR00315 GTP-binding elongation factor signature 387 396 8.7E-17
1 g9652.t5 Pfam PF08938 HBS1 N-terminus 57 145 5.8E-17
2 g9652.t5 Pfam PF00009 Elongation factor Tu GTP binding domain 247 439 4.2E-42
19 g9652.t5 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 244 460 50.057
11 g9652.t5 SUPERFAMILY SSF109732 HBS1-like domain 61 145 6.15E-22
10 g9652.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 243 441 6.04E-60

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