Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Derlin-2.

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 g13753 g13753.t5 isoform g13753.t5 32244365 32245453
chr_1 g13753 g13753.t5 exon g13753.t5.exon1 32244365 32244760
chr_1 g13753 g13753.t5 TTS g13753.t5 32244371 32244371
chr_1 g13753 g13753.t5 cds g13753.t5.CDS1 32244504 32244760
chr_1 g13753 g13753.t5 exon g13753.t5.exon2 32244827 32244912
chr_1 g13753 g13753.t5 cds g13753.t5.CDS2 32244827 32244911
chr_1 g13753 g13753.t5 exon g13753.t5.exon3 32244973 32245311
chr_1 g13753 g13753.t5 exon g13753.t5.exon4 32245387 32245453
chr_1 g13753 g13753.t5 TSS g13753.t5 32245673 32245673

Sequences

>g13753.t5 Gene=g13753 Length=888
ATGGCTAACGTTTTAATTGCTGGGTACAATGAAATACCGATTGTTACAAGAATATATACA
ACAGCTTCACAACATTTGCCGTTCATTTGGATTTAGTATCACCTTTTCAGTTATATTTCA
ATCCAAATTTAATTATGCAAGGACAAATTTGGCGACTCGTCACCACTTTTCTGTTTTTCG
GCACAATAGGATTTTCTTTTCTCTTTAATATGATTTTCACATATCGGTATTGCCGTATGT
TAGAAGAAGGATCATTTAGAGGAAAAACAGCAGATTTTATTATGATGTTCTTTTTTGGAG
CAGTTTTCATGATATTTTTTGCCTTCTTTATTAACCTTTTGTTCTTAGGACAGGCATTTA
CTATTATGCTAGTTTATATTTGGTCTCGACGAAATCCTTTTCTAAGAATGAATTTTTTCG
GATTGTTAAATTTTCAAGCACCTTACCTTCCATGGGTGTTATTGGCCTTTTCTGTGATTT
TGGGTGATATAAGCAACGCCATCTACATTGATCTTGTTGGAATCGGAGCAGGTCATTTCT
ACTATTTTCTTGAAGATGTGTTCCCCAATCAACCAAACGGTCGAAAATTACTCAAAACGC
CACAATTTCTCAAAAACATCTTTGATGAACCAGTCGATACTGATGATTATATTGTTCTAC
CAGAAAATGATAGACCTGGAGGTGCTGCGTTTGCATGGGGAAATAACAACAATAATAATC
CCAATAATAATAATGAGCAACCAAATTAAAATAATTCACTTAACTTTTCGTTCACTTTTT
TTGTATGAGAAACTTTTTTATATTTAACATAATCCTTACCTTATGTGAATAATAAAAGAT
AAACAGAATGAATTTTATTAAAACTGAAATATGAAAAATAATAAAAAT

>g13753.t5 Gene=g13753 Length=113
MNFFGLLNFQAPYLPWVLLAFSVILGDISNAIYIDLVGIGAGHFYYFLEDVFPNQPNGRK
LLKTPQFLKNIFDEPVDTDDYIVLPENDRPGGAAFAWGNNNNNNPNNNNEQPN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13753.t5 MobiDBLite mobidb-lite consensus disorder prediction 94 113 -
6 g13753.t5 MobiDBLite mobidb-lite consensus disorder prediction 96 113 -
2 g13753.t5 PANTHER PTHR11009:SF5 DERLIN-2 1 100 8.4E-31
3 g13753.t5 PANTHER PTHR11009 DER1-LIKE PROTEIN, DERLIN 1 100 8.4E-31
1 g13753.t5 Pfam PF04511 Der1-like family 1 66 8.5E-21
8 g13753.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 12 -
9 g13753.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 13 34 -
7 g13753.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 113 -
4 g13753.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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