Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t8 TTS g13753.t8 32244371 32244371
chr_1 g13753 g13753.t8 isoform g13753.t8 32244504 32245453
chr_1 g13753 g13753.t8 exon g13753.t8.exon1 32244504 32244760
chr_1 g13753 g13753.t8 cds g13753.t8.CDS1 32244504 32244760
chr_1 g13753 g13753.t8 exon g13753.t8.exon2 32244827 32244912
chr_1 g13753 g13753.t8 cds g13753.t8.CDS2 32244827 32244912
chr_1 g13753 g13753.t8 exon g13753.t8.exon3 32244973 32245311
chr_1 g13753 g13753.t8 cds g13753.t8.CDS3 32244973 32245311
chr_1 g13753 g13753.t8 exon g13753.t8.exon4 32245403 32245453
chr_1 g13753 g13753.t8 cds g13753.t8.CDS4 32245403 32245425
chr_1 g13753 g13753.t8 TSS g13753.t8 32245673 32245673

Sequences

>g13753.t8 Gene=g13753 Length=733
ATGGCTAACGTTTTAATTGCTGGGTACAATGAAATACCGATTGTTACAAGACACAACATT
TGCCGTTCATTTGGATTTAGTATCACCTTTTCAGTTATATTTCAATCCAAATTTAATTAT
GCAAGGACAAATTTGGCGACTCGTCACCACTTTTCTGTTTTTCGGCACAATAGGATTTTC
TTTTCTCTTTAATATGATTTTCACATATCGGTATTGCCGTATGTTAGAAGAAGGATCATT
TAGAGGAAAAACAGCAGATTTTATTATGATGTTCTTTTTTGGAGCAGTTTTCATGATATT
TTTTGCCTTCTTTATTAACCTTTTGTTCTTAGGACAGGCATTTACTATTATGCTAGTTTA
TATTTGGTCTCGACGAAATCCTTTTCTAAGAATGAATTTTTTCGGATTGTTAAATTTTCA
AGCACCTTACCTTCCATGGGTGTTATTGGCCTTTTCTGTGATTTTGGGTGATATAAGCAA
CGCCATCTACATTGATCTTGTTGGAATCGGAGCAGGTCATTTCTACTATTTTCTTGAAGA
TGTGTTCCCCAATCAACCAAACGGTCGAAAATTACTCAAAACGCCACAATTTCTCAAAAA
CATCTTTGATGAACCAGTCGATACTGATGATTATATTGTTCTACCAGAAAATGATAGACC
TGGAGGTGCTGCGTTTGCATGGGGAAATAACAACAATAATAATCCCAATAATAATAATGA
GCAACCAAATTAA

>g13753.t8 Gene=g13753 Length=234
MKYRLLQDTTFAVHLDLVSPFQLYFNPNLIMQGQIWRLVTTFLFFGTIGFSFLFNMIFTY
RYCRMLEEGSFRGKTADFIMMFFFGAVFMIFFAFFINLLFLGQAFTIMLVYIWSRRNPFL
RMNFFGLLNFQAPYLPWVLLAFSVILGDISNAIYIDLVGIGAGHFYYFLEDVFPNQPNGR
KLLKTPQFLKNIFDEPVDTDDYIVLPENDRPGGAAFAWGNNNNNNPNNNNEQPN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g13753.t8 PANTHER PTHR11009:SF5 DERLIN-2 9 221 4.4E-91
3 g13753.t8 PANTHER PTHR11009 DER1-LIKE PROTEIN, DERLIN 9 221 4.4E-91
1 g13753.t8 Pfam PF04511 Der1-like family 9 187 6.7E-65
10 g13753.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 34 -
13 g13753.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 60 -
9 g13753.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 61 80 -
14 g13753.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 81 114 -
11 g13753.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 115 133 -
12 g13753.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 134 155 -
8 g13753.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 156 234 -
7 g13753.t8 SUPERFAMILY SSF144091 Rhomboid-like 22 175 1.12E-13
6 g13753.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
5 g13753.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 80 102 -
4 g13753.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 123 145 -

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

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