Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Amphiphysin.

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 g6979 g6979.t6 isoform g6979.t6 20315058 20317102
chr_2 g6979 g6979.t6 exon g6979.t6.exon1 20315058 20315384
chr_2 g6979 g6979.t6 cds g6979.t6.CDS1 20315059 20315384
chr_2 g6979 g6979.t6 exon g6979.t6.exon2 20316103 20316219
chr_2 g6979 g6979.t6 cds g6979.t6.CDS2 20316103 20316219
chr_2 g6979 g6979.t6 exon g6979.t6.exon3 20316291 20316648
chr_2 g6979 g6979.t6 cds g6979.t6.CDS3 20316291 20316648
chr_2 g6979 g6979.t6 exon g6979.t6.exon4 20316711 20316901
chr_2 g6979 g6979.t6 cds g6979.t6.CDS4 20316711 20316875
chr_2 g6979 g6979.t6 exon g6979.t6.exon5 20316967 20317102
chr_2 g6979 g6979.t6 TSS g6979.t6 NA NA
chr_2 g6979 g6979.t6 TTS g6979.t6 NA NA

Sequences

>g6979.t6 Gene=g6979 Length=1129
ATTTTACAAAATTTAGGAAAGGTCGATCGCACAGCTGATGAGATTTTCGATGAACATTTA
AATAATTTTACACTACAGCAGAACTCTGCAAATAGATTACAAAAAGAATTCAACAATTAC
ATACGATGCGTACGAGCGTTACAGGTTGCTTCCAAATCATTAATGGAAGCAATCACAGAA
GTATATGAACCACAATGGTCAGGCTCAGAGGCACTCTATGCTCAAGCCTCTTCAATTGAA
GTTTTATTGCAAGACTTTTCGCACAAATTGGGCGATCAAGTGTTAATTCCGTTAAACACT
TACACTGCACAATTTCCAGAGATGAGAAAAAAGATCGACAAGCGTGGTCGAAAGTTAGTT
GATTATGATAGTCAACGTCATTCCTTCCAAAATCTTCAAGCAAATGCAGCTAAACGTAAG
GATGATGTTAAATTAACAAAAGGTCGCGAGAACCTTGAAGAAGCCAAACGAACTTATGAA
CTTTTAAATACTGAGTTGCATGATGAGTTGCCAGCACTATATGATTCACGGATACTGTTT
TTGGTCACAAATCTTCAGACACTATTCGCATCAGAACAAATGTTTCATACTGAAGTTGCA
AAAATTTATTCGGAATTGGAAGCAATTGTTGATAAACTGGCAACTGAATCACAAAGAGGA
TCATACACACTTAAGAAATTAAACTCAACGGCAGCAAACAATATACAATCTCCAATTAAA
ATCCATGAAAAAACAAGTGTCGCTATCAGTTATCCAGTACCAATCACAAATGGAAATTCA
CCATCGGCTGCTACAAATGGTGCTACATCATCATCATCTCCAGTTTCATCAACTCATTCA
CCAACAACGCCATACGAACATGAACCAAATGAAAAAGCTGTTGCTGCAACTACAACAATC
GTTACAGAAGCACAGTATCAGAACCAAGAGAGTTTGGGTATAAATGAACCTTCATATCAA
AACGCATCAGCCGTTATTAATGGTGATGGTGCTGCTGCAAATGTCATCAATAACAATATC
GAGTCTGTGCAAACTGATAATGGTATGAACAACTCGATGTCGTCCGCAACTGTGGAAGCT
TCAGAAGAAACGCATCTAAATAACAATAACAGTCAAAATAATAACATTA

>g6979.t6 Gene=g6979 Length=322
MEAITEVYEPQWSGSEALYAQASSIEVLLQDFSHKLGDQVLIPLNTYTAQFPEMRKKIDK
RGRKLVDYDSQRHSFQNLQANAAKRKDDVKLTKGRENLEEAKRTYELLNTELHDELPALY
DSRILFLVTNLQTLFASEQMFHTEVAKIYSELEAIVDKLATESQRGSYTLKKLNSTAANN
IQSPIKIHEKTSVAISYPVPITNGNSPSAATNGATSSSSPVSSTHSPTTPYEHEPNEKAV
AATTTIVTEAQYQNQESLGINEPSYQNASAVINGDGAAANVINNNIESVQTDNGMNNSMS
SATVEASEETHLNNNNSQNNNI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g6979.t6 Coils Coil Coil 91 115 -
10 g6979.t6 Gene3D G3DSA:1.20.1270.60 Arfaptin 1 166 4.7E-52
13 g6979.t6 MobiDBLite mobidb-lite consensus disorder prediction 207 230 -
14 g6979.t6 MobiDBLite mobidb-lite consensus disorder prediction 207 237 -
15 g6979.t6 MobiDBLite mobidb-lite consensus disorder prediction 290 322 -
2 g6979.t6 PANTHER PTHR46514 AMPHIPHYSIN 1 298 7.4E-82
3 g6979.t6 PANTHER PTHR46514:SF3 AMPHIPHYSIN 1 298 7.4E-82
5 g6979.t6 PRINTS PR01251 Amphiphysin signature 6 18 4.3E-12
8 g6979.t6 PRINTS PR01251 Amphiphysin signature 41 55 4.3E-12
6 g6979.t6 PRINTS PR01251 Amphiphysin signature 63 74 4.3E-12
4 g6979.t6 PRINTS PR01251 Amphiphysin signature 100 109 4.3E-12
7 g6979.t6 PRINTS PR01251 Amphiphysin signature 111 121 4.3E-12
1 g6979.t6 Pfam PF03114 BAR domain 2 153 3.4E-23
16 g6979.t6 ProSiteProfiles PS51021 BAR domain profile. 1 165 28.366
12 g6979.t6 SMART SM00721 5bar 1 158 3.5E-15
9 g6979.t6 SUPERFAMILY SSF103657 BAR/IMD domain-like 2 159 4.45E-43

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:0005515 protein binding MF
GO:0005737 cytoplasm 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