General information for g6159.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable actin-related protein 2/3 complex subunit 2.
Parent gene
- The parent gene g6159 is located on chr_2: 14655153..14657540 (- strand)
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 | g6159 | g6159.t1 | TTS | g6159.t1 | 14653052 | 14653052 |
| chr_2 | g6159 | g6159.t1 | isoform | g6159.t1 | 14653493 | 14655557 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon1 | 14653493 | 14653520 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS1 | 14653493 | 14653520 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon2 | 14653584 | 14653693 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS2 | 14653584 | 14653693 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon3 | 14653764 | 14653855 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS3 | 14653764 | 14653855 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon4 | 14653918 | 14654425 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS4 | 14653918 | 14654425 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon5 | 14654493 | 14654586 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS5 | 14654493 | 14654586 |
| chr_2 | g6159 | g6159.t1 | exon | g6159.t1.exon6 | 14655484 | 14655557 |
| chr_2 | g6159 | g6159.t1 | cds | g6159.t1.CDS6 | 14655484 | 14655557 |
| chr_2 | g6159 | g6159.t1 | TSS | g6159.t1 | 14655670 | 14655670 |
Sequences
>g6159.t1 Gene=g6159 Length=906
ATGATTTTGTTAGAAATTAATAATAGAAATGTGGAAGAAACACTACTTTTAAAGTTTAAA
AATGCTTTGGCTGGTCATAAACCAGAGTCAATTGATGTCACAGTAGCAGATTTTGATGGT
GTACTTTTTCATATTTCTAACATTAAAAGTGATAAAACAAAAATTCGAACGAGTATATCA
TTAAAGTTTTATAAAGAGTTACAAGAACACGGAGCTGATGAACTTCTTAAACGAGAATAT
GGCGATTTGCTCATCGACCCGGAAGATGGATTTAATGTTTCTGTACTAATCGATTTAGAA
AACATACCTGACAACTATGAAGAAATTGCTCAAAAAATCGGCCTCCTTAAGCGCAACTGC
TTTGCGAGTGTTTTTGAAAAATATTTTGACTTCCAAGAACAAGGTTTAGAAGGAGAAAAA
CGTGCAGTCATTCATTATCGAAATGAAGAGACATTATATGTTGAAGCAAAAGCAGATCGA
GTTACAGTTGTATTTAGTACGATTTTCAAGGATGATGATGATGTTGTAATTGGGAAAGTA
TTTATGCAAGAATTAAGAGAAGGACGTCGTGCTTCGCACACTGCTCCACAAGTTTTGTTT
TCACATCGTGAACCACCAATGGAATTAGCTAATACAGACGCTCGAGTAGGTGACAACATT
GGATATGTTACATTTGTTCTTTTTCCACGACATACAAATAAAGAGACTCGTGATAATACA
ATTAATTTAATTCACATGTTCCGAGACTATTTGCATTATCACATTAAGTGTTCGAAAGCC
TATATTCATTCAAGAATGCGTGCAAAAACATCAGATTTCTTAAAAGTTCTCAACCGAGCT
AGACCTGAACAAAAATCAACAGAAAAGAAAACAATCACGGGAAAAACTTTCCATAGAAAA
GAATGA
>g6159.t1 Gene=g6159 Length=301
MILLEINNRNVEETLLLKFKNALAGHKPESIDVTVADFDGVLFHISNIKSDKTKIRTSIS
LKFYKELQEHGADELLKREYGDLLIDPEDGFNVSVLIDLENIPDNYEEIAQKIGLLKRNC
FASVFEKYFDFQEQGLEGEKRAVIHYRNEETLYVEAKADRVTVVFSTIFKDDDDVVIGKV
FMQELREGRRASHTAPQVLFSHREPPMELANTDARVGDNIGYVTFVLFPRHTNKETRDNT
INLIHMFRDYLHYHIKCSKAYIHSRMRAKTSDFLKVLNRARPEQKSTEKKTITGKTFHRK
E
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g6159.t1 | Gene3D | G3DSA:3.30.1460.20 | - | 1 | 127 | 8.5E-55 |
| 9 | g6159.t1 | Gene3D | G3DSA:3.30.1460.20 | - | 128 | 300 | 2.2E-79 |
| 6 | g6159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 281 | 301 | - |
| 7 | g6159.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 281 | 295 | - |
| 2 | g6159.t1 | PANTHER | PTHR12058 | ARP2/3 COMPLEX 34 KDA SUBUNIT | 1 | 299 | 3.9E-137 |
| 3 | g6159.t1 | PANTHER | PTHR12058:SF0 | ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 2 | 1 | 299 | 3.9E-137 |
| 1 | g6159.t1 | Pfam | PF04045 | Arp2/3 complex, 34 kD subunit p34-Arc | 58 | 284 | 5.9E-101 |
| 4 | g6159.t1 | SUPERFAMILY | SSF69645 | Arp2/3 complex subunits | 1 | 120 | 6.67E-41 |
| 5 | g6159.t1 | SUPERFAMILY | SSF69645 | Arp2/3 complex subunits | 121 | 283 | 4.45E-72 |
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:0030833 | regulation of actin filament polymerization | BP |
| GO:0005885 | Arp2/3 protein complex | CC |
| GO:0034314 | Arp2/3 complex-mediated actin nucleation | BP |
| GO:0015629 | actin cytoskeleton | CC |
| GO:0030041 | actin filament polymerization | BP |
KEGG
Orthology
- This transcript has been annotated with K05758 (actin related protein 2/3 complex, subunit 2)
Pathway
- This transcript belongs to the following pathways
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.
