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_2 g6464 g6464.t4 isoform g6464.t4 17165048 17166343
chr_2 g6464 g6464.t4 exon g6464.t4.exon1 17165048 17165547
chr_2 g6464 g6464.t4 TTS g6464.t4 17165049 17165049
chr_2 g6464 g6464.t4 cds g6464.t4.CDS1 17165370 17165547
chr_2 g6464 g6464.t4 exon g6464.t4.exon2 17165604 17165756
chr_2 g6464 g6464.t4 cds g6464.t4.CDS2 17165604 17165756
chr_2 g6464 g6464.t4 exon g6464.t4.exon3 17166049 17166236
chr_2 g6464 g6464.t4 cds g6464.t4.CDS3 17166049 17166236
chr_2 g6464 g6464.t4 exon g6464.t4.exon4 17166296 17166343
chr_2 g6464 g6464.t4 cds g6464.t4.CDS4 17166296 17166343
chr_2 g6464 g6464.t4 TSS g6464.t4 17166442 17166442

Sequences

>g6464.t4 Gene=g6464 Length=889
ATGAAACTTTTAATTTCATCAGCATTTTTATGTTTTATTATTTCATCAACGATAGCTATT
CGTTGTAACTTTATATTTAGTGCATTTAATGGTAGCCACAACTCGCCGTTTGTATCCCAA
AGTTCCAACGTGCGCAGATCAAGCAGATTGAGAAGAAACAATGATGCGATAAAAGGTGAT
GAACCTTTTGATTGTGAAAATGATATAGAAGCTAAGGGATTCGTGCCTTACGTAGATCGA
GGTCCAATCAAAGATGAATATGAAGCGGAAGAAAATCCTTGTGAAGAAACTTCTTCTATT
TATGCACCTAAAGAACTCAATAATATATATAATAAGTTGATACAAATTGATCATACTACT
ATACAGGAAATTGAAATAACACAATGCCAATATGCAGACTCAGATTGTTCACAAGATAGA
ACTTTTGAAGAAAATAGAAAGGTTTTTTGTACACAGAAGTTTACGAAAATAATTTTGAGA
GCAATTGGAGATGATGGAAAATCATATAATGAAAGATTTTACTATCCTTCAACTTGTGTA
TGTCAACCATATAAGAAAAAAAATTAAATTTTCATTATGAAATATTAAAAGACCATAATC
AAATGAAGAGATCGATGAACAATTAACTGAATATAGTAAGTTATATATAAGTACTCATTC
ACAATCTCTTTATTCATGATCAAACATGATATACGTTTCACAAAAAAAAACATTTATTTC
CACTATTAAACGGTATATTTTCCCGAGAGACATCAACGTTAGCAGTACAAAAATTCATTA
TTATAGTGTGATCATATCGCAAAAAAAAATGTAATGCCAAGAAGAAAACATTGTGAGACA
ATTTATTATCACTAAATTTTAGAGAATAAACGTCTTTTATCAGTTGGTA

>g6464.t4 Gene=g6464 Length=188
MKLLISSAFLCFIISSTIAIRCNFIFSAFNGSHNSPFVSQSSNVRRSSRLRRNNDAIKGD
EPFDCENDIEAKGFVPYVDRGPIKDEYEAEENPCEETSSIYAPKELNNIYNKLIQIDHTT
IQEIEITQCQYADSDCSQDRTFEENRKVFCTQKFTKIILRAIGDDGKSYNERFYYPSTCV
CQPYKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g6464.t4 Gene3D G3DSA:2.10.90.10 - 86 188 1.4E-11
1 g6464.t4 Pfam PF16077 Spaetzle 93 182 3.7E-11
7 g6464.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
8 g6464.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
9 g6464.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
10 g6464.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
6 g6464.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 188 -
2 g6464.t4 SUPERFAMILY SSF57501 Cystine-knot cytokines 36 184 1.11E-7
4 g6464.t4 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
3 g6464.t4 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 27 -

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.

Raw TPM values