Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g10214 g10214.t11 isoform g10214.t11 8264308 8265436
chr_1 g10214 g10214.t11 exon g10214.t11.exon1 8264308 8264700
chr_1 g10214 g10214.t11 cds g10214.t11.CDS1 8264340 8264700
chr_1 g10214 g10214.t11 exon g10214.t11.exon2 8264757 8265436
chr_1 g10214 g10214.t11 cds g10214.t11.CDS2 8264757 8265106
chr_1 g10214 g10214.t11 TTS g10214.t11 8265855 8265855
chr_1 g10214 g10214.t11 TSS g10214.t11 NA NA

Sequences

>g10214.t11 Gene=g10214 Length=1073
ATGAGTCTGGTCAACTTGTTGTCTTTTACTTAATGTCGTTCCTTTGGGGTGCTGAAATCA
TCATTCGTGAGCAATATGCTGAAAATATGTCAAAACTTTGGGTAGATTTCCCAAATCATC
CAATGACATTCTTGCACAAGCTCTACTTCATCATTCAGCTTGCTTACTACTTACATATGT
TGCCAGAACTTTATTTCCAAAAGATTAAGAAAGATGAACAGCTACCAAAGATTCAACATT
CTATTGCAGGGACACTTATTATTGGCTTCTTCTATTTCTTCGCTTATCGTCGTATTGCCA
TTGTTTTGTTGACTCTTCATTATTTCAGCGAATTTGTTGCACATACATTTGGACTTCTTG
AAGTCTTTGACAAGGAAGAGAAATATGCTAAATTCCGCGTTTTCAACAACATCATTTTCC
TCCTTACCGCCTTCTCGACCTTGGTTCTTTCATTCCTCACTTTCTTCACTGGAATAGGAA
AATCAAATCCAACAAGTGGCATGACTGGTTTACTCATTGCCTTTTCTATTCAAGGCTTTC
TCATTTTCCGATTTATTACAAGTTTCCTCAAATCAAAACGTGAATCAAAGGAGCAGCAAG
CCCTTAAACAGCCATTGACAAAGAAATCAAAGGCTAGTGGTGAAACAAAGAATGCTGCTT
CAAGTAAAAAAGACCGCAAGAAGGAATCAGATTTGCCAGAAGCAGATCAAAATGTAAGCC
AAAAGAAAGTCAAGACCAAGTAAATTAAAATTGATTTCCTTTTTTGTTAACACCTGATGA
TTCTGATTATTCTCTTTTATACTTCCTTTCTATACTTGCTTCAGTTGATTTTTTTTAAAA
ATTCTATCTAAGTACATTCATTAAAAAAAAGTTCTAATATTTTTGTAACAGTTCATTCTT
CATGTAAGAGCATTTATTGTAATTTTCTATATATAAAAAGAAGAAAATCTATATTTTTAC
ATTGATCAAAAACGAATTTTTTTGGTTGAAATTTTTCTCGTTGCACATTAAATTTTTTTG
TAGAAAAAGTTTTATTAATAAAAAGTAACTAAATGTCCATAGACGTTAGAAAT

>g10214.t11 Gene=g10214 Length=236
MSFLWGAEIIIREQYAENMSKLWVDFPNHPMTFLHKLYFIIQLAYYLHMLPELYFQKIKK
DEQLPKIQHSIAGTLIIGFFYFFAYRRIAIVLLTLHYFSEFVAHTFGLLEVFDKEEKYAK
FRVFNNIIFLLTAFSTLVLSFLTFFTGIGKSNPTSGMTGLLIAFSIQGFLIFRFITSFLK
SKRESKEQQALKQPLTKKSKASGETKNAASSKKDRKKESDLPEADQNVSQKKVKTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10214.t11 MobiDBLite mobidb-lite consensus disorder prediction 187 236 -
11 g10214.t11 MobiDBLite mobidb-lite consensus disorder prediction 207 236 -
2 g10214.t11 PANTHER PTHR12371:SF11 TRANSLOCATING CHAIN-ASSOCIATED MEMBRANE PROTEIN 1 232 1.7E-57
3 g10214.t11 PANTHER PTHR12371 TRANSLOCATION ASSOCIATED MEMBRANE PROTEIN 1 232 1.7E-57
1 g10214.t11 Pfam PF03798 TLC domain 2 132 4.8E-13
17 g10214.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 36 -
23 g10214.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 37 55 -
14 g10214.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 56 66 -
21 g10214.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 67 84 -
18 g10214.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 89 -
22 g10214.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 111 -
13 g10214.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 122 -
19 g10214.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 123 145 -
16 g10214.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 146 156 -
20 g10214.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 157 176 -
15 g10214.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 177 236 -
12 g10214.t11 ProSiteProfiles PS50922 TLC domain profile. 1 186 8.008
9 g10214.t11 SMART SM00724 lag1_27 2 183 4.9E-9
8 g10214.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 33 55 -
5 g10214.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 67 84 -
7 g10214.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
4 g10214.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 123 145 -
6 g10214.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -

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:0006616 SRP-dependent cotranslational protein targeting to membrane, translocation BP
GO:0016021 integral component of membrane CC

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