Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Equilibrative nucleoside transporter 3.

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.t5 TTS g5860.t5 12438984 12438984
chr_2 g5860 g5860.t5 isoform g5860.t5 12439626 12441013
chr_2 g5860 g5860.t5 exon g5860.t5.exon1 12439626 12440241
chr_2 g5860 g5860.t5 cds g5860.t5.CDS1 12439626 12440241
chr_2 g5860 g5860.t5 exon g5860.t5.exon2 12440303 12440491
chr_2 g5860 g5860.t5 cds g5860.t5.CDS2 12440303 12440484
chr_2 g5860 g5860.t5 exon g5860.t5.exon3 12440965 12441013
chr_2 g5860 g5860.t5 TSS g5860.t5 12441953 12441953

Sequences

>g5860.t5 Gene=g5860 Length=854
CTTTCCTGTTCTTTTTTTGAAAATTTAAAGCATATCAGATTTTTATGCAGGTTACAATGC
TTCCATGGAATTTCTTTATAACAGCTGAAGATTACTGGCAATATAAATTTAGAAATTTAT
CAAGTAATGATTCATCTGTTCTAACTCCAAGGCAAATAGAATTTCAACCAGATATCGCCA
TATGTTCTTCAATTCCAACCACGATATTTCTCGTGCTCAATGCATTCTTTAGTCACAAAA
TTTCACTGAAACTTCGTATGGTTGGCTCAATGATAGTGGTTTTAGTTCTCTTCACAATCA
CAACTGCTTTTGTGGAAATTAACACAGATGATTATCAAGATTTGTTTTTTGAATTTACAC
TGACAATAGTTTTCATCATCAACATTTTTAGTGCAATATTGAATGGTGGTTTATTTGGAA
TTGCAGGAATGTTTAGCAGCAAATATATTACGGCAGTAATTGGCGGACAGGCACTTGGAG
GAGTTTTTACAGCTCTAGCTGAAGTAATTTCAATAACATTCGCAACTGATCCGATAATTA
GCGCTTTGGTTTACTTCCTCGTTGGAACAGCTATGCTTATTGCAGCTTTAGTTCTTTATA
CAATGTTATCACGATCTGTTTTCTTCAAATATCACATAAATCAATCACATATAAAAGCTA
ATACGCTATCAATAAATGCAGATCACAATCAAACAGCAATCACAACGGTTGCAAGCAATA
GTCGAAATTATTTACAACCTGATTGGAAGAAAGTTTGTTCAAAAATATGGATGCATGGTT
CAGGAGCATTGCTTTGCATGATAACAACATTGAGTGTTTATCCTGCAATAACTGTGCTTG
TTAAACCAGTACAT

>g5860.t5 Gene=g5860 Length=266
MLPWNFFITAEDYWQYKFRNLSSNDSSVLTPRQIEFQPDIAICSSIPTTIFLVLNAFFSH
KISLKLRMVGSMIVVLVLFTITTAFVEINTDDYQDLFFEFTLTIVFIINIFSAILNGGLF
GIAGMFSSKYITAVIGGQALGGVFTALAEVISITFATDPIISALVYFLVGTAMLIAALVL
YTMLSRSVFFKYHINQSHIKANTLSINADHNQTAITTVASNSRNYLQPDWKKVCSKIWMH
GSGALLCMITTLSVYPAITVLVKPVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5860.t5 PANTHER PTHR10332 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1 261 6.8E-49
3 g5860.t5 PANTHER PTHR10332:SF10 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1, ISOFORM A 1 261 6.8E-49
6 g5860.t5 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 108 130 1.7E-16
5 g5860.t5 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 136 156 1.7E-16
4 g5860.t5 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 248 265 1.7E-16
1 g5860.t5 Pfam PF01733 Nucleoside transporter 104 263 2.4E-24
18 g5860.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 35 -
25 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 57 -
14 g5860.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 58 68 -
20 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 69 88 -
17 g5860.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 89 99 -
23 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 123 -
15 g5860.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 124 129 -
24 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 130 157 -
16 g5860.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 158 162 -
21 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 163 184 -
13 g5860.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 185 236 -
22 g5860.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 237 258 -
19 g5860.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 259 266 -
12 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 40 59 -
8 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
10 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 98 120 -
11 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 133 155 -
9 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 160 182 -
7 g5860.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 240 262 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5860/g5860.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5860.t5.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