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_4 g16549 g16549.t2 isoform g16549.t2 9898317 9900438
chr_4 g16549 g16549.t2 exon g16549.t2.exon1 9898317 9898530
chr_4 g16549 g16549.t2 cds g16549.t2.CDS1 9898317 9898530
chr_4 g16549 g16549.t2 exon g16549.t2.exon2 9898944 9899306
chr_4 g16549 g16549.t2 cds g16549.t2.CDS2 9898944 9899306
chr_4 g16549 g16549.t2 exon g16549.t2.exon3 9899385 9899921
chr_4 g16549 g16549.t2 cds g16549.t2.CDS3 9899385 9899921
chr_4 g16549 g16549.t2 exon g16549.t2.exon4 9899984 9900438
chr_4 g16549 g16549.t2 cds g16549.t2.CDS4 9899984 9900279
chr_4 g16549 g16549.t2 TSS g16549.t2 NA NA
chr_4 g16549 g16549.t2 TTS g16549.t2 NA NA

Sequences

>g16549.t2 Gene=g16549 Length=1569
GGTGGTGAACAACGAAGAGTTTCTTTAGCTGTCGCAATAATTCACAATCCAAAAATTTTA
ATTCTTGATGAACCAACTGTTGGACTTGACATTTTACTGTGTGATCGAATTTGGAAGTTT
TTGAAAAAACAAACAGAAGAAAAACATTTTACAGTATTTATGACAACACATTATTTAAAT
GAAGCAGCAAAAGCTGATCGTTGTGGTTTCATGAGAAATGGATTTATCATTGTTGAAGAC
AATGCAAGTAAAATTACAAGAAATTTAAATGTTTCAAGTTTAGATGAAGCTTTTTTGATG
ATTTGTCAAAAAAAAGAAATTTTAAGAATTTGTGACAAACAAGAAATTAATGTTAATGAA
GAGAAATTTGAAATTCATGAAGATAAAAAATGGATTAGACTAAAAGTCATAATTGGTTTG
ATAGCATTTGAAATTCATCGATTGAAAAGACAGCCAGTTGAAATTTTCTGGATATTTTTT
GCTATAATTTTTCAATACTGTGTTTTTAGCAATGTCATCGGAACAATTCCATCAAATTTC
AAACTTGGTGTTGTCAAATCAAATTATTACAACTGCAATTCAACAGAAATTATTTTTTGC
AATGAAAGTGAAATTTTTTGTGAATTTTTCAATCAAATTGATGGAATTGAAATGATAAAC
TATGGAAATTATGAAAAATCTTATGATGATTTTAAGAAAAGTGAAATATTTGGAATTATA
AAAATTCCTGAAAATTTTACAAATTTAATAATTGAAAATGAAGAAAATTTAACAATACCG
TTTGAAATTTTGCTTGATAATTCAAAATTTCCACTTTTATTATTTATGCAACAAAAACTT
CAAAAAGCATTTCAGAAATCTATTGAAAATTTATCAAAAACTTGCAATATAAAAAATAAT
TTGCTTATAAAACCAATCAAAATTGAGGAAGAAATGTTTGCACCATTAACATTTGAAACA
AAAAATTATCAATCTGTCATCAATGCTGTTTTAATGCCATTTCCAGCAATTGTTTTATTT
TCATCTTTAACATTCACTCAAAGTCGTCGTGAAGGTGTTTGGAATCGAACAATTTTAAGT
GGAGTTAAAATTACTGAAATTATCATTGCAAATTTAATTGAATGTTTAATCATAGCAGCA
GCTTATTCAGTTCAAATTATTTTTTCACTAAAAGTCTTGATTGAAATTGAAATTATTGGA
AATTTAGGATTGACTTTGTTCATTATATTTATTAATATCATTGTTGGATTTCTTTTTGGA
TTTATTATTGCAATTTTTTATAGTAAATTTGAAATTGCTGTTGGAATGGCGAGTTTAATA
ACTTTTATTATTATTCCTACTTCAGGAATTCTTTGGCCTCTTGAAGGAGCTTCACCGATT
ATTAAACCGTTCTGTTATGCTTTACCTTTATCAATGGTGGGAGAATCACTAAGAAACGTT
ATTTTGAAAGGATTAGAAATACAACATCCATTAGTTTACAAAGGAATTTTATCATCAGGA
TTGTGGATTATTTTAAGCTTATTTTTATCTTTTTTTGGACTAAAATTTAAGAAATTTTCA
ACAGAATAA

>g16549.t2 Gene=g16549 Length=469
MTTHYLNEAAKADRCGFMRNGFIIVEDNASKITRNLNVSSLDEAFLMICQKKEILRICDK
QEINVNEEKFEIHEDKKWIRLKVIIGLIAFEIHRLKRQPVEIFWIFFAIIFQYCVFSNVI
GTIPSNFKLGVVKSNYYNCNSTEIIFCNESEIFCEFFNQIDGIEMINYGNYEKSYDDFKK
SEIFGIIKIPENFTNLIIENEENLTIPFEILLDNSKFPLLLFMQQKLQKAFQKSIENLSK
TCNIKNNLLIKPIKIEEEMFAPLTFETKNYQSVINAVLMPFPAIVLFSSLTFTQSRREGV
WNRTILSGVKITEIIIANLIECLIIAAAYSVQIIFSLKVLIEIEIIGNLGLTLFIIFINI
IVGFLFGFIIAIFYSKFEIAVGMASLITFIIIPTSGILWPLEGASPIIKPFCYALPLSMV
GESLRNVILKGLEIQHPLVYKGILSSGLWIILSLFLSFFGLKFKKFSTE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g16549.t2 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 1 59 2.5E-55
4 g16549.t2 PANTHER PTHR43038:SF2 RH61964P 1 59 2.5E-55
3 g16549.t2 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 84 465 2.5E-55
5 g16549.t2 PANTHER PTHR43038:SF2 RH61964P 84 465 2.5E-55
1 g16549.t2 Pfam PF12698 ABC-2 family transporter protein 105 457 2.8E-15
13 g16549.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 101 -
23 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 102 123 -
16 g16549.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 124 272 -
20 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 273 293 -
14 g16549.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 294 313 -
22 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 314 337 -
17 g16549.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 338 348 -
24 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 349 374 -
15 g16549.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 375 380 -
19 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 381 401 -
18 g16549.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 402 437 -
21 g16549.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 438 461 -
12 g16549.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 462 469 -
10 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 102 124 -
9 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 270 292 -
7 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 313 335 -
11 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 350 372 -
6 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 379 401 -
8 g16549.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 439 461 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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