Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein Malvolio.

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_1 g9997 g9997.t3 TSS g9997.t3 6485973 6485973
chr_1 g9997 g9997.t3 isoform g9997.t3 6486145 6487786
chr_1 g9997 g9997.t3 exon g9997.t3.exon1 6486145 6486309
chr_1 g9997 g9997.t3 exon g9997.t3.exon2 6486766 6486792
chr_1 g9997 g9997.t3 exon g9997.t3.exon3 6486866 6486894
chr_1 g9997 g9997.t3 exon g9997.t3.exon4 6487198 6487453
chr_1 g9997 g9997.t3 cds g9997.t3.CDS1 6487275 6487453
chr_1 g9997 g9997.t3 exon g9997.t3.exon5 6487506 6487786
chr_1 g9997 g9997.t3 cds g9997.t3.CDS2 6487506 6487785
chr_1 g9997 g9997.t3 TTS g9997.t3 NA NA

Sequences

>g9997.t3 Gene=g9997 Length=758
ATGGCTGAAAGTGATGAACGACATCACGATGAAAGTGATAGAACAGTTCCTTATATAAAT
TACGAGGACCATTTTGAAGATGAGGAGGATGATCTCGGTCCTGAATTCTCAACATATTTT
TCAGACCAAAAAGTTGAAATTCCAACATTTCCTGATGACGATAAAGTCGGATTCAGTTTT
AGAAAATTATGGGCATTTACTGGTCCTGGATTTTTAATGAGCTTATCTCGATCCTGGAAA
TATTGAAAGCGATTTACAATCTGGCTTTGTTGCAAAATATAAATTGCTATGGGTTTTGAT
GTGGGCAACAATATTAGGCTTAGTAATGCAACGTTTGGCTATGAGAATTGGTGTCGTTAC
TGGCCTTCATTTGGCTGAAATGTGCAATCGACAGTACAAGAAATTTCCTCGACTTATTTT
ATGGATTATGATAGAAATTGCTATAATTGGTAGTGATATGCAGGAAGTTATAGGAACAGC
AATTGCTATATATTTGCTATCAATGAAAGCTGTTCCAATTTATATCGGAGTCATAATCAC
AATTTTTGACACATTTACTTTCCTTTTAATTGACAAATATGGACTTAGAAAATTAGAATT
TTTCTTTGGATTTCTTATCACTGTTATGGCAGTCACATTTGGATATGAATTTTTTGTTGT
GAAGCCAGAAATCACCGAAATAATCAAAGGAGCTGCAATTCCATGGTGTGCCGATTGTGA
TAGTAGAGCATTATTGCAAGCTGTGGGAATTGTTGGAG

>g9997.t3 Gene=g9997 Length=153
MWATILGLVMQRLAMRIGVVTGLHLAEMCNRQYKKFPRLILWIMIEIAIIGSDMQEVIGT
AIAIYLLSMKAVPIYIGVIITIFDTFTFLLIDKYGLRKLEFFFGFLITVMAVTFGYEFFV
VKPEITEIIKGAAIPWCADCDSRALLQAVGIVG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9997.t3 PANTHER PTHR11706:SF40 NATURAL RESISTANCE-ASSOCIATED MACROPHAGE PROTEIN 2 2 153 1.5E-70
3 g9997.t3 PANTHER PTHR11706 SOLUTE CARRIER PROTEIN FAMILY 11 MEMBER 2 153 1.5E-70
5 g9997.t3 PRINTS PR00447 Natural resistance-associated macrophage protein signature 41 67 2.1E-39
4 g9997.t3 PRINTS PR00447 Natural resistance-associated macrophage protein signature 71 90 2.1E-39
7 g9997.t3 PRINTS PR00447 Natural resistance-associated macrophage protein signature 96 117 2.1E-39
6 g9997.t3 PRINTS PR00447 Natural resistance-associated macrophage protein signature 148 153 2.1E-39
1 g9997.t3 Pfam PF01566 Natural resistance-associated macrophage protein 1 153 1.1E-47
11 g9997.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 38 -
14 g9997.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 39 66 -
13 g9997.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 67 71 -
16 g9997.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 72 91 -
10 g9997.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 92 102 -
15 g9997.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 121 -
12 g9997.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 122 153 -
8 g9997.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 62 84 -
9 g9997.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 99 121 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016020 membrane CC
GO:0046873 metal ion transmembrane transporter activity MF
GO:0030001 metal ion transport BP

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