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 g12614 g12614.t4 TSS g12614.t4 24791362 24791362
chr_1 g12614 g12614.t4 isoform g12614.t4 24791403 24793181
chr_1 g12614 g12614.t4 exon g12614.t4.exon1 24791403 24791833
chr_1 g12614 g12614.t4 cds g12614.t4.CDS1 24791403 24791833
chr_1 g12614 g12614.t4 exon g12614.t4.exon2 24791962 24792228
chr_1 g12614 g12614.t4 cds g12614.t4.CDS2 24791962 24792228
chr_1 g12614 g12614.t4 exon g12614.t4.exon3 24792630 24792717
chr_1 g12614 g12614.t4 cds g12614.t4.CDS3 24792630 24792645
chr_1 g12614 g12614.t4 exon g12614.t4.exon4 24792781 24792915
chr_1 g12614 g12614.t4 exon g12614.t4.exon5 24792998 24793181
chr_1 g12614 g12614.t4 TTS g12614.t4 24793269 24793269

Sequences

>g12614.t4 Gene=g12614 Length=1105
ATGAATCGCGCAAGATTTTACAAAGCAATAAAACCACATTTGCTTACAATTTTGACTGTT
CTCGCTGTGATTTTCAGTATTGTTCTTGGAATAATTTTAAGAGTAAATCATGATAAATAT
TCAGCAAGGACTGTGATGTATGTCAATTTTTTGGGCGATCTCTTTCTTCGTATGATCAGA
GCTCTCATTTTGCCTTTGATTATTTCATCCCTTATTAGCGCGATTGCGCCACTTGATTTT
TTATTAAGCAAGAAAATAGGTCTAAGAGCAATAGTTTATATTCTTGTAACAACTATCATT
GCTGTCATTCTTGGAATTGTTCTTGTGGTAACTATAAAACCGGGTGGAGCTGGTCTAGAA
GATAATGAAGAAGGAATTGTTTCTAATAGAAAATCATCAACGATTGTTGACACTTTGCTT
GATTTAATAAGAAACATTTTTCCACCGAATATTGTTCAAGCGACACTACAAACTTATCAA
ACGACCTTAACACCACCAGAAGACAATCCTGATGCGGACATTAATGATTGGATAATTAGC
TCTCATTATGTAGATGGAACAAATATGCTTGGTGTGGTGGCAGTGTCAATCATTTTTGGC
ATAACAATGAGTTTGGTACGAGAAAAAGTCAAAGGTTTAATCGATGTCACACTTGAATTT
ACATTAATTATGATGAAAATTATTCAATTTGTAATTTGGCACTGCTCTTTATGAGGCTGT
TGCCGCAATTTTCATAGCACAACTGCGACAAATTGACTTATCAATTGGATCAATTATTGC
CGTGTGTATCACTGCTACATGCGCTTCAATTGGGACAGCCGGTGTGCCTCAAGCTGGCTT
AGTAACGCTTGTAATGGTTCTTGATTCAATTGGAATTCCTGCTGAAGATATCAGTTTAAT
TATTGCTATAGATTGGATTGTGAACCGAATTAGAGCATGTGTTAACATTCTTGGTGATGC
TTATGGAGCAGCAATTATAGAAGCAATAAGCAAAAAAGAATTGGATAAACTTCCAATAGA
AGCACCAAATGACGTTGAAACAGCAAAAGAAGAAACAACAAATCTTAATGGGAATGCAAC
TGATGTAAGATTAAAGGAAGTTTAA

>g12614.t4 Gene=g12614 Length=237
MNRARFYKAIKPHLLTILTVLAVIFSIVLGIILRVNHDKYSARTVMYVNFLGDLFLRMIR
ALILPLIISSLISAIAPLDFLLSKKIGLRAIVYILVTTIIAVILGIVLVVTIKPGGAGLE
DNEEGIVSNRKSSTIVDTLLDLIRNIFPPNIVQATLQTYQTTLTPPEDNPDADINDWIIS
SHYVDGTNMLGVVAVSIIFGITMSLVREKVKGLIDVTLEFTLIMMKIIQFVIWHCSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g12614.t4 Gene3D G3DSA:1.10.3860.10 Proton glutamate symport protein 4 165 7.8E-30
15 g12614.t4 Gene3D G3DSA:1.10.3860.10 Proton glutamate symport protein 170 236 2.2E-5
2 g12614.t4 PANTHER PTHR11958:SF63 AMINO ACID TRANSPORTER 5 234 9.8E-56
3 g12614.t4 PANTHER PTHR11958 SODIUM/DICARBOXYLATE SYMPORTER-RELATED 5 234 9.8E-56
7 g12614.t4 PRINTS PR00173 Glutamate-aspartate symporter signature 13 33 1.0E-39
6 g12614.t4 PRINTS PR00173 Glutamate-aspartate symporter signature 58 78 1.0E-39
5 g12614.t4 PRINTS PR00173 Glutamate-aspartate symporter signature 87 112 1.0E-39
4 g12614.t4 PRINTS PR00173 Glutamate-aspartate symporter signature 184 206 1.0E-39
8 g12614.t4 PRINTS PR00173 Glutamate-aspartate symporter signature 231 237 1.0E-39
1 g12614.t4 Pfam PF00375 Sodium:dicarboxylate symporter family 15 233 1.4E-39
18 g12614.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
27 g12614.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
20 g12614.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 36 54 -
26 g12614.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 55 78 -
19 g12614.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 89 -
25 g12614.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
21 g12614.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 113 188 -
24 g12614.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 189 206 -
17 g12614.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 212 -
23 g12614.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 213 233 -
22 g12614.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 234 237 -
14 g12614.t4 SUPERFAMILY SSF118215 Proton glutamate symport protein 15 234 2.48E-32
11 g12614.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
13 g12614.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
10 g12614.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
9 g12614.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 183 205 -
12 g12614.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 212 234 -

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:0016021 integral component of membrane CC
GO:0015293 symporter 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. There were no conditions that were differentially expressed