General information for g6868.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6868 is located on chr_2: 19355927..19357821 (+ 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 | g6868 | g6868.t1 | isoform | g6868.t1 | 19355927 | 19357821 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon1 | 19355927 | 19356145 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS1 | 19355927 | 19356145 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon2 | 19356221 | 19356375 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS2 | 19356221 | 19356375 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon3 | 19356539 | 19356597 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS3 | 19356539 | 19356597 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon4 | 19356742 | 19357279 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS4 | 19356742 | 19357279 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon5 | 19357621 | 19357668 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS5 | 19357621 | 19357668 |
| chr_2 | g6868 | g6868.t1 | exon | g6868.t1.exon6 | 19357758 | 19357821 |
| chr_2 | g6868 | g6868.t1 | cds | g6868.t1.CDS6 | 19357758 | 19357821 |
| chr_2 | g6868 | g6868.t1 | TTS | g6868.t1 | 19358039 | 19358039 |
| chr_2 | g6868 | g6868.t1 | TSS | g6868.t1 | NA | NA |
Sequences
>g6868.t1 Gene=g6868 Length=1083
ATGCCAGAAAAAATTGAAAAGTCATTGTCAGAACAGGAGCAGCTAACAAAATATTCATAT
GAAGTTAGCGAGTCATCAGAAAACGAATATGATGTTGAGGAACAAGAAGAGCATGATGAC
GAAGAGAACGATGATGATGAACTACAAGACATTGGAGAATTACTTGGTTTTCGCATTACC
GGCGGAAAGGATTTTTTTATGCCAATCACAATATTTCACGTAAAGGAAAAGAGTCGCGCT
GAGAAGGCAAACCTGAAGCTTGGCGATGCAATTTTATCAATCAATGGAAAAGACACAGAA
GATATGACGTTAGTTCGTGCAAATAGATATCTTGCCAAAGTAGCAGATGGTGATGTGACG
CTTCAAGTGGCAAAATTCAATCCAAATGAAGATGATGAAGATGTGCAGACGATTGAGGAA
GTTGTGCTTGAAGGTCCCATAAGTCTTCAACAACGATTAAAACAAATGCAGCAGCAACTT
CTTGATGTTTCCGATATTCCACCACAGATTCAATCTAAACTGGCAATGCTAACGAAAGCA
TTAGAACAATTCATGACAATGGATGCGGATGCACTCGAAGCATCGTGGAGTCAAGATGAA
AAAGATGCATCTTCAATAGAACGTGAAATGTCACAAGACATTGGAAATAGTGAAGTAAAT
ACTGATGATGAAAAGCAATTTTCAACCATTGAAGAAGAGATTGAAAATGAAGATATCGAA
GAGGGAAAGCTTTCAAGTACTCGTGAGACGTCTTATTCATTTGAGGATTTAGTTGGTGAT
GATGAACGAAACTTAGACAGCTATGATCAATGTGAGGCAGAAGAGTTTAGTTGTGAAGAA
GAGGAAGAATTCGTATGCGACACAGAAGAAAAGTTACAACAAGCTGCTGAACGAAAAATG
AAGAACGAAAAAATTCAAACTTTACAAAAGTCGTGGCAAAAGTTGTGTGAAAATCAAAAG
ACTATTCACAAACGAAGCAACTGTCATTTGGTACCGAGTACGGCTTTACTCAATAACAAA
ATAAACCAACTGAATGAGTCAAAAGTCATTTCATTTTATGAGCGTAAAAGAAATCCTCAA
TAG
>g6868.t1 Gene=g6868 Length=360
MPEKIEKSLSEQEQLTKYSYEVSESSENEYDVEEQEEHDDEENDDDELQDIGELLGFRIT
GGKDFFMPITIFHVKEKSRAEKANLKLGDAILSINGKDTEDMTLVRANRYLAKVADGDVT
LQVAKFNPNEDDEDVQTIEEVVLEGPISLQQRLKQMQQQLLDVSDIPPQIQSKLAMLTKA
LEQFMTMDADALEASWSQDEKDASSIEREMSQDIGNSEVNTDDEKQFSTIEEEIENEDIE
EGKLSSTRETSYSFEDLVGDDERNLDSYDQCEAEEFSCEEEEEFVCDTEEKLQQAAERKM
KNEKIQTLQKSWQKLCENQKTIHKRSNCHLVPSTALLNNKINQLNESKVISFYERKRNPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6868.t1 | CDD | cd00992 | PDZ_signaling | 55 | 124 | 1.74689E-16 |
| 6 | g6868.t1 | Coils | Coil | Coil | 286 | 306 | - |
| 5 | g6868.t1 | Gene3D | G3DSA:2.30.42.10 | - | 47 | 131 | 1.6E-17 |
| 9 | g6868.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 47 | - |
| 11 | g6868.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 26 | 47 | - |
| 10 | g6868.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 200 | 225 | - |
| 2 | g6868.t1 | PANTHER | PTHR24214 | PDZ AND LIM DOMAIN PROTEIN ZASP | 55 | 135 | 4.1E-14 |
| 3 | g6868.t1 | PANTHER | PTHR24214:SF56 | Z BAND ALTERNATIVELY SPLICED PDZ-MOTIF PROTEIN 67, ISOFORM G | 55 | 135 | 4.1E-14 |
| 1 | g6868.t1 | Pfam | PF00595 | PDZ domain | 51 | 123 | 7.3E-11 |
| 12 | g6868.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 52 | 111 | 12.607 |
| 8 | g6868.t1 | SMART | SM00228 | pdz_new | 53 | 127 | 6.4E-12 |
| 4 | g6868.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 53 | 125 | 4.99E-17 |
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