Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Lethal(2)neighbour of Tid 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_2 g7474 g7474.t2 isoform g7474.t2 23913860 23914782
chr_2 g7474 g7474.t2 exon g7474.t2.exon1 23913860 23914782
chr_2 g7474 g7474.t2 cds g7474.t2.CDS1 23914019 23914507
chr_2 g7474 g7474.t2 TSS g7474.t2 23915689 23915689
chr_2 g7474 g7474.t2 TTS g7474.t2 NA NA

Sequences

>g7474.t2 Gene=g7474 Length=923
CTCATCCGATCTCATATATCAAAGGAAGTTTCGATTTAGGTCGTGTTTTTGAGCACAAAT
GGACTGTAAATTATAGATTTTTAGACCGTGAAACATTTGAAAATTCGACGTTTCACGTTG
CTCTTTTGATTTTGCATCTTGTACTGCTTGTAGTTGTCACTAAACCATGCTATCTTTTCT
TCAAAAACTATGCACGCTTAAGAACTTTACAAGCTCAATTTGAGCCTCAAATTGCTGCTG
AAAACAGAGAAATAGAACAGGAGATTCAACAAAAAATGAAAAAATTGAAGAAGAAAGTTA
ATGATAAAGAAGAACAGTTATCAACAGAACAAAAAAATTTCTTGAAATCTTTTGAAAAAG
GATTGAAAAATCAATTTGGTGAACAAAATCAACCAAAACCTGAGCCAAAGGATGAAGATG
ATCCGAAAAAAGTTGAAATACATTTTGATCAATGTGTTCAATTGGCAATTTTACCAATTT
TCCTTATCAACTTTATTGGAATCGTTTGTGCAAGATCACTTCATTATCAATTTTATGTAT
GGTATTTTCATTCATTGCCATATCTCTCATGGTTCACAGACTATCATACAAGTTTCAAAA
TTCTTATCCTATTTTTGATCGAATTTTGCTGGAATCAATATCCTTCAACAGTCTTTTCAA
GTGTTTTATTGCATGCATGTCATACAATTTTATTATTTGGAGTTATTCGAAAAATTTATA
AAGAAGTTGCAATGGCTAAGCAAGCATCAAGCAAACAAAAATGAATGTGCCTTTGTAGAC
AATTAAAATTTATGAATAAAATTTTGACACGTTTTTATAATAAAATTTTTAATTATTTTT
ATTATCAGTTATTAAAAGCGTATTAGGGTTTGTTTTATTTTAATATATTTTACATATCAA
TTATAAAGTTTTTCATAAATTCT

>g7474.t2 Gene=g7474 Length=162
MKKLKKKVNDKEEQLSTEQKNFLKSFEKGLKNQFGEQNQPKPEPKDEDDPKKVEIHFDQC
VQLAILPIFLINFIGIVCARSLHYQFYVWYFHSLPYLSWFTDYHTSFKILILFLIEFCWN
QYPSTVFSSVLLHACHTILLFGVIRKIYKEVAMAKQASSKQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g7474.t2 Coils Coil Coil 1 21 -
2 g7474.t2 PANTHER PTHR12646 NOT56 - RELATED 19 160 1.1E-30
1 g7474.t2 Pfam PF05208 ALG3 protein 42 129 3.4E-30
6 g7474.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 59 -
10 g7474.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 83 -
9 g7474.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 84 102 -
12 g7474.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 119 -
7 g7474.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 120 125 -
11 g7474.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 126 144 -
8 g7474.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 145 162 -
4 g7474.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
3 g7474.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 122 144 -

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:0000030 mannosyltransferase 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