General information for g11201.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Activating signal cointegrator 1 complex subunit 3.
Parent gene
- The parent gene g11201 is located on chr_1: 14556106..14557145 (- 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_1 | g11201 | g11201.t5 | isoform | g11201.t5 | 14551911 | 14553365 |
| chr_1 | g11201 | g11201.t5 | exon | g11201.t5.exon1 | 14551911 | 14553365 |
| chr_1 | g11201 | g11201.t5 | cds | g11201.t5.CDS1 | 14551913 | 14553223 |
| chr_1 | g11201 | g11201.t5 | TSS | g11201.t5 | NA | NA |
| chr_1 | g11201 | g11201.t5 | TTS | g11201.t5 | NA | NA |
Sequences
>g11201.t5 Gene=g11201 Length=1455
ATGGAACGATCGAATACATGGAAAAAATTCGGAATCTTTTTGGATTTGGATTGAAGATCC
CGAAAATAACTATATTTATCATTCAGAATATTTTCAAGTGACCAAGAAACAAGTAATTAA
CAACGAACAACAAGAACTGATAATGACAATTCCTTTAAAAGATCCTTTACCACCTCAGTA
CTACATTCGAGCAACTAGTGACTCATGGCTAAGTTCAAGTGTTTATGAAGCTCTTAGTTT
TAAGCATCTTATTTTACCTGAAATGCATCCACCTCACACCGAATTATTGCCTCTTCAACC
GCTTCCAATAACTGTTTTAAAAGAGCCATCATTTGAAGCCCTTTACAAGTTCACTCACTT
TAATCCAATTCAAACACAAATCTTTCATTGTCTCTATCATACTGATCATAATGTGTTGCT
TGGAGCACCCACTGGCAGTGGAAAATCTATTGCAGCAGAAATTGCTATATTTCGCGTTTT
TAAACAAAATCCAAAAGCAAAAGTAATCTATATTGCTCCACTTAAAGCTCTTGTAAAGGA
ACGAATTGACGATTGGAGTATACGCTTTGGTGAAAAATTAGGAAAGATTGTAGTAGAATT
GACTGGTGATGTGACACCTGATGCAAATGCTATAAGAAATTCCCATGTAATTGTTACAAC
TCCAGAAAAATGGGATGGTATTTCAAGAAGCTGGCAAACTCGTGAATATGTGCGTGATGT
TTCATTAATTGTAATTGACGAAATTCACTTACTTGGTGAAGATAGAGGACCAGTACTCGA
AGTTATTGTTTCACGAACAAACTTTATTAGTTCTCATACAACAAGAAAAATTCGAATCAT
TGGTCTATCGACAGCACTTGCTAATGCAAAAGATTTAGCAAATTGGCTTGAGATTGGTGA
AATGGGACTCTATAATTTTAAACCATCTGTTCGGCCCGTTCCGATGTCAGTGCATATTTC
AGGCTTTCCTGGAAAGCATTATTGCCCACGAATGGCAACAATGAATAGACCAGCATTTCA
AGCTATCCGTCAATATTCACCATGTACACCAGCTCTAATTTTTGTTTCATCTCGTAGACA
AACACGTTTAACTGCACTCGATTTGATTGCATTTCTCGCTGGTGAAGAAAATCCAAAACA
ATTTTTGCACATTCAAGAAGATGAAATGGACCAAATTTTGATGGGAATTAAAGACAATAA
TTTGAAGTTAACGCTTGCTTTTGGAATTGGTTTGCATCATGCTGGTTTACAAGAAAAAGA
TAGAAAAGTTTGTGAAGAATTGTTCCTGAATAGAAAAATTCAAATTTTAATTGCAACGTC
GACTCTTGCTTGGGGTGTCAATCTACCAGCACATTTAGTTATTATTAAAGGAACTGAATA
TTATGATAAGAAAACGAACAGATATGTTGATATGCCAATTACTGATGTTCTTCAAATGAT
GGGAAGAGCTGGACG
>g11201.t5 Gene=g11201 Length=437
MTIPLKDPLPPQYYIRATSDSWLSSSVYEALSFKHLILPEMHPPHTELLPLQPLPITVLK
EPSFEALYKFTHFNPIQTQIFHCLYHTDHNVLLGAPTGSGKSIAAEIAIFRVFKQNPKAK
VIYIAPLKALVKERIDDWSIRFGEKLGKIVVELTGDVTPDANAIRNSHVIVTTPEKWDGI
SRSWQTREYVRDVSLIVIDEIHLLGEDRGPVLEVIVSRTNFISSHTTRKIRIIGLSTALA
NAKDLANWLEIGEMGLYNFKPSVRPVPMSVHISGFPGKHYCPRMATMNRPAFQAIRQYSP
CTPALIFVSSRRQTRLTALDLIAFLAGEENPKQFLHIQEDEMDQILMGIKDNNLKLTLAF
GIGLHHAGLQEKDRKVCEELFLNRKIQILIATSTLAWGVNLPAHLVIIKGTEYYDKKTNR
YVDMPITDVLQMMGRAG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g11201.t5 | CDD | cd18022 | DEXHc_ASCC3_2 | 72 | 260 | 0.0000000 |
| 14 | g11201.t5 | CDD | cd18795 | SF2_C_Ski2 | 264 | 437 | 0.0000000 |
| 11 | g11201.t5 | Gene3D | G3DSA:2.60.40.150 | - | 1 | 36 | 0.0000023 |
| 10 | g11201.t5 | Gene3D | G3DSA:3.40.50.300 | - | 37 | 264 | 0.0000000 |
| 9 | g11201.t5 | Gene3D | G3DSA:3.40.50.300 | - | 265 | 437 | 0.0000000 |
| 3 | g11201.t5 | PANTHER | PTHR24075 | SEC63 DOMAIN-CONTAINING | 1 | 437 | 0.0000000 |
| 4 | g11201.t5 | PANTHER | PTHR24075:SF6 | ACTIVATING SIGNAL COINTEGRATOR 1 COMPLEX SUBUNIT 3 | 1 | 437 | 0.0000000 |
| 1 | g11201.t5 | Pfam | PF00270 | DEAD/DEAH box helicase | 75 | 240 | 0.0000000 |
| 2 | g11201.t5 | Pfam | PF00271 | Helicase conserved C-terminal domain | 353 | 437 | 0.0000014 |
| 13 | g11201.t5 | ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 82 | 257 | 20.6570000 |
| 12 | g11201.t5 | ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 294 | 437 | 9.8960000 |
| 8 | g11201.t5 | SMART | SM00487 | ultradead3 | 69 | 269 | 0.0000000 |
| 7 | g11201.t5 | SMART | SM00490 | helicmild6 | 343 | 437 | 0.0000000 |
| 5 | g11201.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 250 | 0.0000000 |
| 6 | g11201.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 259 | 437 | 0.0000000 |
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:0005524 | ATP binding | MF |
| GO:0003676 | nucleic acid binding | MF |
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.
