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.t6 TTS g4417.t6 2048676 2048676
chr_2 g4417 g4417.t6 isoform g4417.t6 2048712 2050404
chr_2 g4417 g4417.t6 exon g4417.t6.exon1 2048712 2049448
chr_2 g4417 g4417.t6 cds g4417.t6.CDS1 2049212 2049448
chr_2 g4417 g4417.t6 exon g4417.t6.exon2 2049517 2050026
chr_2 g4417 g4417.t6 cds g4417.t6.CDS2 2049517 2050026
chr_2 g4417 g4417.t6 exon g4417.t6.exon3 2050402 2050404
chr_2 g4417 g4417.t6 cds g4417.t6.CDS3 2050402 2050404
chr_2 g4417 g4417.t6 TSS g4417.t6 2050554 2050554

Sequences

>g4417.t6 Gene=g4417 Length=1250
ATGGATTTAATTGATTTAGCACCCGCATTATGCGAGGATTTGCTCACATCTGTGGATCAG
CCATTAAAAATTGCCAAGGATAAAGAAACAGGAAAAGACTATTTATTATGTGATTATAAT
CGAGATGGTGACTCATATCGATCGCCTTGGTCAAATACTTATGATCCGCCTCTTGAAGAT
GGCTCAATGCCTTCAGAGCGACTGAGAAAATTAGAAATTGAAGCCAATCATGCGTTCGAC
CAATATCGTGAAATGTATTATGAAGGTGGTGTGTCGTCTGCTTATCTTTGGGATTTAGAT
CACGGTTTTGCTGGTGTGATTTTAATTAAAAAAGCTGGAGATGGAAATAAAAAAATCAAA
GGTTGTTGGGACTCAATTCATGTTGTTGAAGTTCAAGAAAAGAGTTCAGGAAGAACAGCA
CATTATAAACTAACATCGACTGCAATGTTATGGCTTCAAACACATAAACAAGCGTCGGGA
ACGATGAATTTAGGCGGAAGTTTAACAAGACAGATTGAACAAGACTGTCCTGTAAGTGAA
TCTTCACCTCATATTGCCAATATTGGGAGAATGATTGAAGATATGGAAAATAAAATTCGA
AACACTCTCAATGAGATTTACTTCGGCAAAACAAAAGATGTCGTAAATGGTCTACGATCA
GTAGAAGTTTTAGCCGATCAAAAACAGAAAACTGCAATGAAACAAGATTTAGCAAATGCA
ATCATGAGAAGAAATGTCAAAGCAGAGTGAGTTTAACAAGACTGTTGAATGGATTGTGGA
TTGTTGTTAATTTCACCTTTGTGTTTAGCTTCGAATTCTAAAATTCATTATAAAAGCGTT
AATCAAAACGACCGAACGAAAGACGAAAAAAATCCATTCACTCATATGTGCTTTTTATCA
AGCGATGAACAATACATTAAAAAACTTATTTTATTCCTCAGTTTGATATTTTTTTAAAAC
TTTATAAATTTTTAAACGAGAGACATTAACAATTTTGGCATTAATCACAGAAAAAGAGAG
CACTTTAAAAATTTAATAAGACAAATGTTATTCGATTAAAGTATTCCATAAAAAATGAGC
GAAAACTAGTATAATAAGTGCATCTTTATCAAAGTTAAATGCACAATATTACGATAATTG
AGCATAAAAAATTGTATCATTTTCTAATTTTATATACACCTTTAAATGCATTTCAATATT
TTTTTTTATGTTTTACTTACTATTTTTCTTTTTGTAGTGTTTAAATTAGA

>g4417.t6 Gene=g4417 Length=249
MDLIDLAPALCEDLLTSVDQPLKIAKDKETGKDYLLCDYNRDGDSYRSPWSNTYDPPLED
GSMPSERLRKLEIEANHAFDQYREMYYEGGVSSAYLWDLDHGFAGVILIKKAGDGNKKIK
GCWDSIHVVEVQEKSSGRTAHYKLTSTAMLWLQTHKQASGTMNLGGSLTRQIEQDCPVSE
SSPHIANIGRMIEDMENKIRNTLNEIYFGKTKDVVNGLRSVEVLADQKQKTAMKQDLANA
IMRRNVKAE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g4417.t6 Coils Coil Coil 185 205 -
10 g4417.t6 Gene3D G3DSA:1.20.58.570 - 1 64 1.2E-30
9 g4417.t6 Gene3D G3DSA:2.40.160.80 - 65 219 4.3E-74
2 g4417.t6 PANTHER PTHR10619 F-ACTIN-CAPPING PROTEIN SUBUNIT BETA 2 239 1.1E-122
6 g4417.t6 PRINTS PR00192 F-actin capping protein beta subunit signature 1 22 3.8E-56
4 g4417.t6 PRINTS PR00192 F-actin capping protein beta subunit signature 32 58 3.8E-56
3 g4417.t6 PRINTS PR00192 F-actin capping protein beta subunit signature 72 99 3.8E-56
5 g4417.t6 PRINTS PR00192 F-actin capping protein beta subunit signature 187 213 3.8E-56
1 g4417.t6 Pfam PF01115 F-actin capping protein, beta subunit 2 215 5.5E-100
8 g4417.t6 ProSitePatterns PS00231 F-actin capping protein beta subunit signature. 37 42 -
7 g4417.t6 SUPERFAMILY SSF90096 Subunits of heterodimeric actin filament capping protein Capz 2 244 5.36E-88

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