General information for g12001.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12001 is located on chr_1: 20282853..20286592 (+ 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 | g12001 | g12001.t5 | TSS | g12001.t5 | 20280976 | 20280976 |
| chr_1 | g12001 | g12001.t5 | isoform | g12001.t5 | 20280992 | 20283585 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon1 | 20280992 | 20281058 |
| chr_1 | g12001 | g12001.t5 | cds | g12001.t5.CDS1 | 20280992 | 20281058 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon2 | 20281145 | 20281235 |
| chr_1 | g12001 | g12001.t5 | cds | g12001.t5.CDS2 | 20281145 | 20281235 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon3 | 20281670 | 20281829 |
| chr_1 | g12001 | g12001.t5 | cds | g12001.t5.CDS3 | 20281670 | 20281829 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon4 | 20282498 | 20282543 |
| chr_1 | g12001 | g12001.t5 | cds | g12001.t5.CDS4 | 20282498 | 20282543 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon5 | 20282729 | 20282785 |
| chr_1 | g12001 | g12001.t5 | cds | g12001.t5.CDS5 | 20282729 | 20282736 |
| chr_1 | g12001 | g12001.t5 | exon | g12001.t5.exon6 | 20282843 | 20283585 |
| chr_1 | g12001 | g12001.t5 | TTS | g12001.t5 | 20283580 | 20283580 |
Sequences
>g12001.t5 Gene=g12001 Length=1164
ATGACAAAGACTAGTTCGGAAGTGCATCAGCAGGGAGATAGAATTATTAAAACGACTACT
ACAGAAGTTATTACAAAATCATCAACAATGCAACCACAAAAAAAGGTATCACCATTCGAG
AAATTCCGTCAACTTGATCGTCAAAATTCCCTTCCAAATTCACCATCACCTCGAACACCA
ACAACACCCACTACTCCCGGAGGTTCTAAGAAAAATGGTCCACTTTTTTCCTTCACTGAT
CCAGCACTCGCTAAGCGAGCATCCACCGTCAAAGAACAATTATTACAATGGGCGCAGATG
AAGACGAAAGAATATGAGAACGTCAATATAGAAAATTTCAGTACAAGTTGGTCAGATGGA
TTAGCAAATTAACACCTAAAGATAGAAGACATAATTTTACTTTGGCATTCCGGATTGCAG
AAGAAAAAGCCGGTATTTGTCCTTTGCTTGATGTTGACGATATGGTTATGTATAAAAAGC
CAGATTGGAAATGTGTGTTTTGCTACGTCCAGTCAATATATCGAAGATTTAAAGATGAAA
TATAAAAGCAAAGGAAGAATATTAAGCATCAAAAAGGCTTTTTAAATGGAAAATTTCTTC
TTATTCATCACATTGATTTTAAGATAAAAAAAAGTTTTTATGACAATAGTCTTTATGTTG
AAATTTAAATTTGAGCAAGTCAAATGTATCATAATTTTTGTTGATTTATTCAATTTTATT
TTCTTTTAAATTGTGATGTATAGAACGTGTATTAATTTTGTAAATTTTAATTCATCTGAC
TTAATTTTTGATGATTTTTTCTCCTTTCTTTTTTACATTTTTGTCAATCTGTGGTTGTTG
ATTTTCTTTGAATGAAAAAATAATTTTTTATTTTAAAAGAAGATAATTTTGTTTGCAAAC
ATAAAACTCTCAAAATGGTGCAGGTTTATTGTACTAACTTTTCTATAACTATTTTTTTAA
TAAAACACTCATAACAGCAATGCTGTAATCAAAAAATTATGTGAAACTAATCATTAGAGT
TAATTAAAATATTTTTTGTAACTTGATAATCATGAAACCATTATGAAATTGTTGGAAAAA
AAACTAAAACTATGAAACAAAAAAGCAATACAATTGTAAAAACTTTTTACTGATGACAAT
AAAAATATTTTATTGAATCAAATT
>g12001.t5 Gene=g12001 Length=123
MTKTSSEVHQQGDRIIKTTTTEVITKSSTMQPQKKVSPFEKFRQLDRQNSLPNSPSPRTP
TTPTTPGGSKKNGPLFSFTDPALAKRASTVKEQLLQWAQMKTKEYENVNIENFSTSWSDG
LAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12001.t5 | Gene3D | G3DSA:1.10.418.10 | - | 83 | 123 | 4.3E-11 |
| 5 | g12001.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 76 | - |
| 6 | g12001.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
| 2 | g12001.t5 | PANTHER | PTHR23167 | CALPONIN HOMOLOGY DOMAIN-CONTAINING PROTEIN DDB_G0272472-RELATED | 61 | 122 | 1.2E-16 |
| 3 | g12001.t5 | PANTHER | PTHR23167:SF48 | AGAP011397-PA | 61 | 122 | 1.2E-16 |
| 1 | g12001.t5 | Pfam | PF00307 | Calponin homology (CH) domain | 90 | 122 | 3.5E-6 |
| 8 | g12001.t5 | ProSiteProfiles | PS50021 | Calponin homology (CH) domain profile. | 88 | 123 | 10.8 |
| 4 | g12001.t5 | SUPERFAMILY | SSF47576 | Calponin-homology domain, CH-domain | 89 | 122 | 1.78E-9 |
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 |
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. There were no conditions that were differentially expressed