General information for g13753.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Derlin-2.
Parent gene
- The parent gene g13753 is located on chr_1: 32245305..32245980 (- strand)
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.t10 | TTS | g13753.t10 | 32244371 | 32244371 |
| chr_1 | g13753 | g13753.t10 | isoform | g13753.t10 | 32244504 | 32245871 |
| chr_1 | g13753 | g13753.t10 | exon | g13753.t10.exon1 | 32244504 | 32244760 |
| chr_1 | g13753 | g13753.t10 | cds | g13753.t10.CDS1 | 32244504 | 32244760 |
| chr_1 | g13753 | g13753.t10 | exon | g13753.t10.exon2 | 32244827 | 32244912 |
| chr_1 | g13753 | g13753.t10 | cds | g13753.t10.CDS2 | 32244827 | 32244912 |
| chr_1 | g13753 | g13753.t10 | exon | g13753.t10.exon3 | 32244973 | 32245311 |
| chr_1 | g13753 | g13753.t10 | cds | g13753.t10.CDS3 | 32244973 | 32245311 |
| chr_1 | g13753 | g13753.t10 | exon | g13753.t10.exon4 | 32245380 | 32245481 |
| chr_1 | g13753 | g13753.t10 | cds | g13753.t10.CDS4 | 32245380 | 32245453 |
| chr_1 | g13753 | g13753.t10 | exon | g13753.t10.exon5 | 32245845 | 32245871 |
| chr_1 | g13753 | g13753.t10 | TSS | g13753.t10 | NA | NA |
Sequences
>g13753.t10 Gene=g13753 Length=811
TGTATTACACTGCATTTAATAAACTTGAACCTTGTGAAATTAAAGGTGAAAACAAATGGC
TAACGTTTTAATTGCTGGGTACAATGAAATACCGATTGTTACAAGAATATATACAACAGC
TTGTGTTTGCACAACATTTGCCGTTCATTTGGATTTAGTATCACCTTTTCAGTTATATTT
CAATCCAAATTTAATTATGCAAGGACAAATTTGGCGACTCGTCACCACTTTTCTGTTTTT
CGGCACAATAGGATTTTCTTTTCTCTTTAATATGATTTTCACATATCGGTATTGCCGTAT
GTTAGAAGAAGGATCATTTAGAGGAAAAACAGCAGATTTTATTATGATGTTCTTTTTTGG
AGCAGTTTTCATGATATTTTTTGCCTTCTTTATTAACCTTTTGTTCTTAGGACAGGCATT
TACTATTATGCTAGTTTATATTTGGTCTCGACGAAATCCTTTTCTAAGAATGAATTTTTT
CGGATTGTTAAATTTTCAAGCACCTTACCTTCCATGGGTGTTATTGGCCTTTTCTGTGAT
TTTGGGTGATATAAGCAACGCCATCTACATTGATCTTGTTGGAATCGGAGCAGGTCATTT
CTACTATTTTCTTGAAGATGTGTTCCCCAATCAACCAAACGGTCGAAAATTACTCAAAAC
GCCACAATTTCTCAAAAACATCTTTGATGAACCAGTCGATACTGATGATTATATTGTTCT
ACCAGAAAATGATAGACCTGGAGGTGCTGCGTTTGCATGGGGAAATAACAACAATAATAA
TCCCAATAATAATAATGAGCAACCAAATTAA
>g13753.t10 Gene=g13753 Length=251
MANVLIAGYNEIPIVTRIYTTACVCTTFAVHLDLVSPFQLYFNPNLIMQGQIWRLVTTFL
FFGTIGFSFLFNMIFTYRYCRMLEEGSFRGKTADFIMMFFFGAVFMIFFAFFINLLFLGQ
AFTIMLVYIWSRRNPFLRMNFFGLLNFQAPYLPWVLLAFSVILGDISNAIYIDLVGIGAG
HFYYFLEDVFPNQPNGRKLLKTPQFLKNIFDEPVDTDDYIVLPENDRPGGAAFAWGNNNN
NNPNNNNEQPN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13753.t10 | PANTHER | PTHR11009:SF5 | DERLIN-2 | 7 | 238 | 4.5E-100 |
| 3 | g13753.t10 | PANTHER | PTHR11009 | DER1-LIKE PROTEIN, DERLIN | 7 | 238 | 4.5E-100 |
| 1 | g13753.t10 | Pfam | PF04511 | Der1-like family | 12 | 204 | 8.5E-72 |
| 9 | g13753.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 16 | g13753.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 32 | - |
| 12 | g13753.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 33 | 51 | - |
| 15 | g13753.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 52 | 77 | - |
| 10 | g13753.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 78 | 97 | - |
| 14 | g13753.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 98 | 131 | - |
| 13 | g13753.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 132 | 150 | - |
| 17 | g13753.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 151 | 172 | - |
| 11 | g13753.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 173 | 251 | - |
| 8 | g13753.t10 | SUPERFAMILY | SSF144091 | Rhomboid-like | 10 | 192 | 1.22E-16 |
| 7 | g13753.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 6 | g13753.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 50 | 72 | - |
| 5 | g13753.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 130 | - |
| 4 | g13753.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
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 transcript has been annotated with K13989 (Derlin-2/3)
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.
