Gene loci information

Transcript annotation

  • This transcript has been annotated as Translation initiation factor eIF-2B subunit alpha.

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 g1977 g1977.t8 TTS g1977.t8 14167622 14167622
chr_3 g1977 g1977.t8 isoform g1977.t8 14167742 14170363
chr_3 g1977 g1977.t8 exon g1977.t8.exon1 14167742 14168281
chr_3 g1977 g1977.t8 cds g1977.t8.CDS1 14167742 14168281
chr_3 g1977 g1977.t8 exon g1977.t8.exon2 14168342 14168607
chr_3 g1977 g1977.t8 cds g1977.t8.CDS2 14168342 14168607
chr_3 g1977 g1977.t8 exon g1977.t8.exon3 14168670 14168841
chr_3 g1977 g1977.t8 cds g1977.t8.CDS3 14168670 14168784
chr_3 g1977 g1977.t8 exon g1977.t8.exon4 14170282 14170363
chr_3 g1977 g1977.t8 TSS g1977.t8 NA NA

Sequences

>g1977.t8 Gene=g1977 Length=1060
TATTTAAAACAACCTACTCCGCTTCCACAATGTGCTCACAGATCAAATAACTATACGCGA
CTGACAAATTGCGAAAAATGTTTGTTTATTTTGAATTTCATCAGGAACATTAAAAATTAT
ATTTCATTTGTATATTATCATGGATAATGCTCAAATCGAAAGATATTTTCTTAATATCGT
TAATAACGACAATAATATGTCGTATGGAATAGCAGCAATTAAAACTTTACTTATGGTTCT
CGAGAAAACAACTTTTGTGACAATTCAAGAGTTGATTAATACAATAAAATCTGCAATTAA
AGTAATAAAAGAAAGTGGAAAACCAATAACATCAATTAGTTCTTCATGTGAACTTTTCAT
GTGCTTCATCACTATCTCAAGTCCAAAAATTGATGAAATGTATGACATGGAAGAAGTAAA
GAAAATAATGACTAATAGAGGACAAAGTTTCTTAAGAAAACTGCTGGCCAGTCGTGAAGT
TATTGCTAAAAATTCTGTAGACTTTATTACAGATGGATGTAGAATCTTGACAATAGGTCG
ATCAAGAGTAGTGTATGAAGCATTAAAACTAGCTGCCTCAAAGAACAAACATTTTCGAGT
ATATGTTACAATGAGCATGAGTTCCTTTAAAAATGAAAATGAGGGAGAGATGATGGTACA
GGATTTAAAGCAATTAAACATTGATGCTTCATTAGTGCTTGATGCTGCAATTGGATACAC
AATGGAAAGCATTGACTTTGTTTTTTCTGGTGCAGAAGGCGTAATGGAAAATGGTGGGAT
AATAAATAGAATAGGAACCTTTACTGCTGCATTGTGTGCCAGTGAAATGAACAAACCATT
TTACGTCTTAACTGAAAGTTTCAAATTCTCTCGAATTTATCCACTCAATCAACGAGATAT
ACCGAGTACTTATAAATTTATACAAAACAGAAATGGCGAAAAGGCAAATATTCATCCGTT
AGTTGACTTTACACCTCCACTCTTTATAACTCTCATATTTACTGATCTTGGAATTTTGAC
ACCTTCTGCTGTTAGTGATGAACTTATAAAACTTTATTAA

>g1977.t8 Gene=g1977 Length=306
MDNAQIERYFLNIVNNDNNMSYGIAAIKTLLMVLEKTTFVTIQELINTIKSAIKVIKESG
KPITSISSSCELFMCFITISSPKIDEMYDMEEVKKIMTNRGQSFLRKLLASREVIAKNSV
DFITDGCRILTIGRSRVVYEALKLAASKNKHFRVYVTMSMSSFKNENEGEMMVQDLKQLN
IDASLVLDAAIGYTMESIDFVFSGAEGVMENGGIINRIGTFTAALCASEMNKPFYVLTES
FKFSRIYPLNQRDIPSTYKFIQNRNGEKANIHPLVDFTPPLFITLIFTDLGILTPSAVSD
ELIKLY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g1977.t8 Gene3D G3DSA:1.20.120.1070 - 1 108 0
6 g1977.t8 Gene3D G3DSA:3.40.50.10470 - 110 306 0
2 g1977.t8 PANTHER PTHR45860:SF1 TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA 4 306 0
3 g1977.t8 PANTHER PTHR45860 TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA 4 306 0
1 g1977.t8 Pfam PF01008 Initiation factor 2 subunit family 19 295 0
4 g1977.t8 SUPERFAMILY SSF100950 NagB/RpiA/CoA transferase-like 17 306 0

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:0044237 cellular metabolic process BP

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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. There were no conditions that were differentially expressed