Gene loci information

Transcript annotation

  • This transcript has been annotated as F-actin-capping protein subunit beta.

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 g4417 g4417.t9 TTS g4417.t9 2048676 2048676
chr_2 g4417 g4417.t9 isoform g4417.t9 2049141 2050404
chr_2 g4417 g4417.t9 exon g4417.t9.exon1 2049141 2049448
chr_2 g4417 g4417.t9 cds g4417.t9.CDS1 2049444 2049448
chr_2 g4417 g4417.t9 exon g4417.t9.exon2 2049531 2050101
chr_2 g4417 g4417.t9 cds g4417.t9.CDS2 2049531 2050101
chr_2 g4417 g4417.t9 exon g4417.t9.exon3 2050402 2050404
chr_2 g4417 g4417.t9 cds g4417.t9.CDS3 2050402 2050404
chr_2 g4417 g4417.t9 TSS g4417.t9 2050554 2050554

Sequences

>g4417.t9 Gene=g4417 Length=882
ATGAGTGACTTACAAATGGATTGCGCTTTGGATTTAATGAGGCGTTTACCACCACAACAA
ATTGAAAAAAATCTAATTGATTTAATTGATTTAGCACCCGCATTATGCGAGGATTTGCTC
ACATCTGTGGATCAGCCATTAAAAATTGCCAAGGATAAAGAAACAGGAAAAGACTATTTA
TTATGTGATTATAATCGAGATGGTGACTCATATCGATCGCCTTGGTCAAATACTTATGAT
CCGCCTCTTGAAGATGGCTCAATGCCTTCAGAGCGACTGAGAAAATTAGAAATTGAAGCC
AATCATGCGTTCGACCAATATCGTGAAATGTATTATGAAGGTGGTGTGTCGTCTGCTTAT
CTTTGGGATTTAGATCACGGTTTTGCTGGTGTGATTTTAATTAAAAAAGCTGGAGATGGA
AATAAAAAAATCAAAGGTTGTTGGGACTCAATTCATGTTGTTGAAGTTCAAGAAAAGAGT
TCAGGAAGAACAGCACATTATAAACTAACATCGACTGCAATGTTATGGCTTCAAACACAT
AAACAAGCGTCGGGAACGATGAATTTAGGCGGAAATTGAACAAGACTGTCCTGTAAGTGA
ATCTTCACCTCATATTGCCAATATTGGGAGAATGATTGAAGATATGGAAAATAAAATTCG
AAACACTCTCAATGAGATTTACTTCGGCAAAACAAAAGATGTCGTAAATGGTCTACGATC
AGTAGAAGTTTTAGCCGATCAAAAACAGAAAACTGCAATGAAACAAGATTTAGCAAATGC
AATCATGAGAAGAAATGTCAAAGCAGAGTGAGTTTAACAAGACTGTTGAATGGATTGTGG
ATTGTTGTTAATTTCACCTTTGTGTTTAGCTTCGAATTCTAA

>g4417.t9 Gene=g4417 Length=192
MSDLQMDCALDLMRRLPPQQIEKNLIDLIDLAPALCEDLLTSVDQPLKIAKDKETGKDYL
LCDYNRDGDSYRSPWSNTYDPPLEDGSMPSERLRKLEIEANHAFDQYREMYYEGGVSSAY
LWDLDHGFAGVILIKKAGDGNKKIKGCWDSIHVVEVQEKSSGRTAHYKLTSTAMLWLQTH
KQASGTMNLGGN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g4417.t9 Gene3D G3DSA:1.20.58.570 - 1 89 2.6E-43
9 g4417.t9 Gene3D G3DSA:2.40.160.80 - 90 192 1.5E-46
2 g4417.t9 PANTHER PTHR10619 F-ACTIN-CAPPING PROTEIN SUBUNIT BETA 1 192 4.0E-103
6 g4417.t9 PRINTS PR00192 F-actin capping protein beta subunit signature 5 25 9.6E-55
4 g4417.t9 PRINTS PR00192 F-actin capping protein beta subunit signature 26 47 9.6E-55
3 g4417.t9 PRINTS PR00192 F-actin capping protein beta subunit signature 57 83 9.6E-55
5 g4417.t9 PRINTS PR00192 F-actin capping protein beta subunit signature 97 124 9.6E-55
1 g4417.t9 Pfam PF01115 F-actin capping protein, beta subunit 6 192 7.3E-86
8 g4417.t9 ProSitePatterns PS00231 F-actin capping protein beta subunit signature. 62 67 -
7 g4417.t9 SUPERFAMILY SSF90096 Subunits of heterodimeric actin filament capping protein Capz 4 192 1.44E-74

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:0003779 actin binding MF
GO:0030036 actin cytoskeleton organization BP
GO:0051016 barbed-end actin filament capping BP
GO:0005737 cytoplasm CC
GO:0008290 F-actin capping protein complex 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