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.t21 isoform g9997.t21 6487786 6489203
chr_1 g9997 g9997.t21 exon g9997.t21.exon1 6487786 6487789
chr_1 g9997 g9997.t21 exon g9997.t21.exon2 6487870 6488243
chr_1 g9997 g9997.t21 cds g9997.t21.CDS1 6487875 6488243
chr_1 g9997 g9997.t21 exon g9997.t21.exon3 6488425 6488542
chr_1 g9997 g9997.t21 cds g9997.t21.CDS2 6488425 6488542
chr_1 g9997 g9997.t21 exon g9997.t21.exon4 6488604 6488861
chr_1 g9997 g9997.t21 cds g9997.t21.CDS3 6488604 6488861
chr_1 g9997 g9997.t21 exon g9997.t21.exon5 6488925 6489090
chr_1 g9997 g9997.t21 cds g9997.t21.CDS4 6488925 6489090
chr_1 g9997 g9997.t21 exon g9997.t21.exon6 6489188 6489203
chr_1 g9997 g9997.t21 cds g9997.t21.CDS5 6489188 6489203
chr_1 g9997 g9997.t21 TTS g9997.t21 6489490 6489490
chr_1 g9997 g9997.t21 TSS g9997.t21 NA NA

Sequences

>g9997.t21 Gene=g9997 Length=936
GCTGTTATTATGCCACACAATCTTTATCTTCATTCAGCTTTAGTAAAATCAAGAAAAGTT
GATCGACATCAGCCATCGAAAGTTAGAGAAGCCAATTATTATTTCTTCATTGAAGCATCT
ATTGCACTTTTTGTTTCGTTCTTGATCAACGTCTTTGTTGTTGCTGTTTTTGCTCACGGT
CTTAATGGAAAGACCAATGAGGATGTAGTTAATGAATGTTTTAACAAGACAATTTATGAT
GAAGCCAAAGCAATTTTTACTGGTGATGAATTAGATGTCGATATTTATAAAGGTGGAATA
TTTTTGGGATGTACATTTGGTATTGTTGCACTCTATGTGTGGGCAATTGGGATTCTTGCT
GCTGGACAGAGTTCTACTATGACAGGAACATATAGTGGACAATTTGCAATGGAAGGTTTT
CTCAATCTGAAATGGTCTAGATGGCATCGTGTTCTTGTTACCCGAATGATTGCAGTTGTT
CCAACATTTGTAGTGGCATTTTATAGTGAAATTGAGCAAGTAACTAAAATGAATGACTAC
TTAAATGCAATTATGGCATTGCAACTTCCATTTGCAACAATTCCAACTATTGCATTTTCA
TCATCGGTTGCAATTATGGGTGAATTCGTAAATGGCTTTTGGAATAAACTCATATCAATT
TTACTTAGCATCACAGTGATAGGAATCAATTTGACGTTTATAATTAGTCGTTTAGAGCTA
TCACATGTGTCAGGATGGTTGACAATCTTTATTGTAATATTCTCTATTCTCTATGTAATT
TTCTGTATATATTTGGTGATTCATATGATTTGCATGCTTAAACCCGATTCACGAATAGCG
AGATCGGTATTTGCAAGAAGGTTTGTACTAAAAACGGCGAGCTCATCAGCTGATGCTCAT
GGTGATAGTTCGGTTACAAGACCACTCGTTTATTAG

>g9997.t21 Gene=g9997 Length=308
MPHNLYLHSALVKSRKVDRHQPSKVREANYYFFIEASIALFVSFLINVFVVAVFAHGLNG
KTNEDVVNECFNKTIYDEAKAIFTGDELDVDIYKGGIFLGCTFGIVALYVWAIGILAAGQ
SSTMTGTYSGQFAMEGFLNLKWSRWHRVLVTRMIAVVPTFVVAFYSEIEQVTKMNDYLNA
IMALQLPFATIPTIAFSSSVAIMGEFVNGFWNKLISILLSITVIGINLTFIISRLELSHV
SGWLTIFIVIFSILYVIFCIYLVIHMICMLKPDSRIARSVFARRFVLKTASSSADAHGDS
SVTRPLVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9997.t21 PANTHER PTHR11706:SF40 NATURAL RESISTANCE-ASSOCIATED MACROPHAGE PROTEIN 2 1 280 6.8E-99
3 g9997.t21 PANTHER PTHR11706 SOLUTE CARRIER PROTEIN FAMILY 11 MEMBER 1 280 6.8E-99
6 g9997.t21 PRINTS PR00447 Natural resistance-associated macrophage protein signature 119 138 2.6E-27
4 g9997.t21 PRINTS PR00447 Natural resistance-associated macrophage protein signature 147 164 2.6E-27
5 g9997.t21 PRINTS PR00447 Natural resistance-associated macrophage protein signature 179 198 2.6E-27
1 g9997.t21 Pfam PF01566 Natural resistance-associated macrophage protein 1 209 7.6E-52
15 g9997.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
24 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 55 -
17 g9997.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 56 96 -
20 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 97 118 -
14 g9997.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 119 148 -
25 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 168 -
19 g9997.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 169 179 -
23 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 180 202 -
16 g9997.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 203 213 -
22 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 214 232 -
18 g9997.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 233 243 -
21 g9997.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 244 268 -
13 g9997.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 269 308 -
10 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 53 -
9 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 96 118 -
8 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 166 -
7 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 181 203 -
12 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 210 232 -
11 g9997.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 242 264 -

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