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.t6 TTS g5860.t6 12438984 12438984
chr_2 g5860 g5860.t6 isoform g5860.t6 12439626 12441777
chr_2 g5860 g5860.t6 exon g5860.t6.exon1 12439626 12440241
chr_2 g5860 g5860.t6 cds g5860.t6.CDS1 12439626 12440241
chr_2 g5860 g5860.t6 exon g5860.t6.exon2 12440303 12440491
chr_2 g5860 g5860.t6 cds g5860.t6.CDS2 12440303 12440491
chr_2 g5860 g5860.t6 exon g5860.t6.exon3 12441551 12441777
chr_2 g5860 g5860.t6 cds g5860.t6.CDS3 12441551 12441777
chr_2 g5860 g5860.t6 TSS g5860.t6 12441953 12441953

Sequences

>g5860.t6 Gene=g5860 Length=1032
ATGATTAATTCACCATCGCGTAGTCCACTTTTAAACAATCCTCAAGATGAAGTCTCAAGT
GAGGATGAATCTCAAGAAAATCTGCATGCAACAATAGTTGAGACTAATACTTATATTGCA
ACTTCTGCCCGCTCACAAAATACAGGTGCTAAAGAATACACCCGACTCACTTCAGTTCCA
GTCGATCGCTACAACTTTGCTTTCCTTGTCTTTTATTTTCTTGGGATGGTTACAATGCTT
CCATGGAATTTCTTTATAACAGCTGAAGATTACTGGCAATATAAATTTAGAAATTTATCA
AGTAATGATTCATCTGTTCTAACTCCAAGGCAAATAGAATTTCAACCAGATATCGCCATA
TGTTCTTCAATTCCAACCACGATATTTCTCGTGCTCAATGCATTCTTTAGTCACAAAATT
TCACTGAAACTTCGTATGGTTGGCTCAATGATAGTGGTTTTAGTTCTCTTCACAATCACA
ACTGCTTTTGTGGAAATTAACACAGATGATTATCAAGATTTGTTTTTTGAATTTACACTG
ACAATAGTTTTCATCATCAACATTTTTAGTGCAATATTGAATGGTGGTTTATTTGGAATT
GCAGGAATGTTTAGCAGCAAATATATTACGGCAGTAATTGGCGGACAGGCACTTGGAGGA
GTTTTTACAGCTCTAGCTGAAGTAATTTCAATAACATTCGCAACTGATCCGATAATTAGC
GCTTTGGTTTACTTCCTCGTTGGAACAGCTATGCTTATTGCAGCTTTAGTTCTTTATACA
ATGTTATCACGATCTGTTTTCTTCAAATATCACATAAATCAATCACATATAAAAGCTAAT
ACGCTATCAATAAATGCAGATCACAATCAAACAGCAATCACAACGGTTGCAAGCAATAGT
CGAAATTATTTACAACCTGATTGGAAGAAAGTTTGTTCAAAAATATGGATGCATGGTTCA
GGAGCATTGCTTTGCATGATAACAACATTGAGTGTTTATCCTGCAATAACTGTGCTTGTT
AAACCAGTACAT

>g5860.t6 Gene=g5860 Length=344
MINSPSRSPLLNNPQDEVSSEDESQENLHATIVETNTYIATSARSQNTGAKEYTRLTSVP
VDRYNFAFLVFYFLGMVTMLPWNFFITAEDYWQYKFRNLSSNDSSVLTPRQIEFQPDIAI
CSSIPTTIFLVLNAFFSHKISLKLRMVGSMIVVLVLFTITTAFVEINTDDYQDLFFEFTL
TIVFIINIFSAILNGGLFGIAGMFSSKYITAVIGGQALGGVFTALAEVISITFATDPIIS
ALVYFLVGTAMLIAALVLYTMLSRSVFFKYHINQSHIKANTLSINADHNQTAITTVASNS
RNYLQPDWKKVCSKIWMHGSGALLCMITTLSVYPAITVLVKPVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g5860.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 18 -
16 g5860.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 25 -
2 g5860.t6 PANTHER PTHR10332 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 52 339 1.2E-54
3 g5860.t6 PANTHER PTHR10332:SF10 EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1, ISOFORM A 52 339 1.2E-54
5 g5860.t6 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 186 208 3.2E-16
4 g5860.t6 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 214 234 3.2E-16
6 g5860.t6 PRINTS PR01130 Delayed-early response protein/equilibrative nucleoside transporter signature 326 343 3.2E-16
1 g5860.t6 Pfam PF01733 Nucleoside transporter 182 341 4.7E-24
19 g5860.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 63 -
29 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 85 -
22 g5860.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 86 113 -
30 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 135 -
17 g5860.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 136 146 -
28 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 147 166 -
24 g5860.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 167 177 -
31 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 178 201 -
18 g5860.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 202 207 -
27 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 208 235 -
21 g5860.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 236 240 -
25 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 241 262 -
20 g5860.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 263 314 -
26 g5860.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 315 336 -
23 g5860.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 337 344 -
14 g5860.t6 SUPERFAMILY SSF103473 MFS general substrate transporter 65 279 3.66E-5
7 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 64 86 -
13 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 118 137 -
12 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 144 166 -
9 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -
10 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 211 233 -
11 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 238 260 -
8 g5860.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 318 340 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5860/g5860.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5860.t6.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