Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Equilibrative nucleoside transporter 1.

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_2 g5860 g5860.t4 TTS g5860.t4 12438984 12438984
chr_2 g5860 g5860.t4 isoform g5860.t4 12439626 12440233
chr_2 g5860 g5860.t4 exon g5860.t4.exon1 12439626 12440233
chr_2 g5860 g5860.t4 cds g5860.t4.CDS1 12439626 12440222
chr_2 g5860 g5860.t4 TSS g5860.t4 NA NA

Sequences

>g5860.t4 Gene=g5860 Length=608
TGAAACTTCGTATGGTTGGCTCAATGATAGTGGTTTTAGTTCTCTTCACAATCACAACTG
CTTTTGTGGAAATTAACACAGATGATTATCAAGATTTGTTTTTTGAATTTACACTGACAA
TAGTTTTCATCATCAACATTTTTAGTGCAATATTGAATGGTGGTTTATTTGGAATTGCAG
GAATGTTTAGCAGCAAATATATTACGGCAGTAATTGGCGGACAGGCACTTGGAGGAGTTT
TTACAGCTCTAGCTGAAGTAATTTCAATAACATTCGCAACTGATCCGATAATTAGCGCTT
TGGTTTACTTCCTCGTTGGAACAGCTATGCTTATTGCAGCTTTAGTTCTTTATACAATGT
TATCACGATCTGTTTTCTTCAAATATCACATAAATCAATCACATATAAAAGCTAATACGC
TATCAATAAATGCAGATCACAATCAAACAGCAATCACAACGGTTGCAAGCAATAGTCGAA
ATTATTTACAACCTGATTGGAAGAAAGTTTGTTCAAAAATATGGATGCATGGTTCAGGAG
CATTGCTTTGCATGATAACAACATTGAGTGTTTATCCTGCAATAACTGTGCTTGTTAAAC
CAGTACAT

>g5860.t4 Gene=g5860 Length=199
MVGSMIVVLVLFTITTAFVEINTDDYQDLFFEFTLTIVFIINIFSAILNGGLFGIAGMFS
SKYITAVIGGQALGGVFTALAEVISITFATDPIISALVYFLVGTAMLIAALVLYTMLSRS
VFFKYHINQSHIKANTLSINADHNQTAITTVASNSRNYLQPDWKKVCSKIWMHGSGALLC
MITTLSVYPAITVLVKPVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5860.t4 PANTHER PTHR10332 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1 195 2.3E-34
3 g5860.t4 PANTHER PTHR10332:SF10 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1, ISOFORM A 1 195 2.3E-34
6 g5860.t4 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 41 63 8.8E-17
4 g5860.t4 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 69 89 8.8E-17
5 g5860.t4 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 181 198 8.8E-17
1 g5860.t4 Pfam PF01733 Nucleoside transporter 37 196 1.0E-24
18 g5860.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
19 g5860.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
20 g5860.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 14 -
25 g5860.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
15 g5860.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 28 -
23 g5860.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 56 -
13 g5860.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 57 62 -
22 g5860.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 63 90 -
17 g5860.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 91 95 -
24 g5860.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 96 117 -
14 g5860.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 118 169 -
21 g5860.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 170 191 -
16 g5860.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 192 199 -
12 g5860.t4 SignalP_EUK SignalP-TM SignalP-TM 1 17 -
11 g5860.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -
10 g5860.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 37 59 -
8 g5860.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
9 g5860.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -
7 g5860.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 173 195 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5860/g5860.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5860.t4.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005337 nucleoside transmembrane transporter activity MF
GO:1901642 nucleoside transmembrane transport 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