General information for g8938.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Capon-like protein.
Parent gene
- The parent gene g8938 is located on chr_2: 33956510..33978131 (- 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 | g8938 | g8938.t1 | isoform | g8938.t1 | 33954081 | 33957578 |
| chr_2 | g8938 | g8938.t1 | exon | g8938.t1.exon1 | 33954081 | 33954974 |
| chr_2 | g8938 | g8938.t1 | cds | g8938.t1.CDS1 | 33954081 | 33954974 |
| chr_2 | g8938 | g8938.t1 | exon | g8938.t1.exon2 | 33956259 | 33956432 |
| chr_2 | g8938 | g8938.t1 | cds | g8938.t1.CDS2 | 33956259 | 33956432 |
| chr_2 | g8938 | g8938.t1 | exon | g8938.t1.exon3 | 33956510 | 33956614 |
| chr_2 | g8938 | g8938.t1 | cds | g8938.t1.CDS3 | 33956510 | 33956614 |
| chr_2 | g8938 | g8938.t1 | TTS | g8938.t1 | 33956592 | 33956592 |
| chr_2 | g8938 | g8938.t1 | exon | g8938.t1.exon4 | 33956678 | 33956749 |
| chr_2 | g8938 | g8938.t1 | cds | g8938.t1.CDS4 | 33956678 | 33956749 |
| chr_2 | g8938 | g8938.t1 | exon | g8938.t1.exon5 | 33957477 | 33957578 |
| chr_2 | g8938 | g8938.t1 | cds | g8938.t1.CDS5 | 33957477 | 33957578 |
| chr_2 | g8938 | g8938.t1 | TSS | g8938.t1 | 33978128 | 33978128 |
Sequences
>g8938.t1 Gene=g8938 Length=1347
ATGCCATCGCAGCCGTACAATCTGGTCAAGGACGATCAAGACATTCGAGTCCCACTACAC
TCTGATGAGGCGTTCTACACGGGCATCAGCTTTCAAGCCAAGTTCATTGGATTCCAAGAT
GTCCCGCGTCCCACTAGTCGGACAGAAATCGTTCAAGCAATGAGAAGAATTCGGTATGAA
TACAAGCAACAAAATGCAAAAAAGAAAAAAGTTACCATAGAGATCTCGGTAGATGGAGTG
AGGGTCTGTTTGAAAAAGCGAAAAAGAAGAATGCGAGTTAGAAAATCACAAAACTGGTCT
GGTGATTTAGGAGAAATCGAGATTATGCATCATCCAATTTATCGGATCTTTTATGTTTCG
CACGACAGTAGTGATTTAAAAATTTTCAGTTATATTGCTCGAGATGGTAGTTCTGATCGT
TTCAAATGCATGGTATTTAAAAGTAACAAAAAGTTTTCTGACTTGCAATTTATTAATCTT
CATGCAACTATAATTGAATTCGCTGATGACATCTTACTCATATGGATTGATTCTCAAGGT
GGTATTGCTGAAATGATAGAAAGTGATCTGAAAGAAATAAACAAATATTATGATAATAAC
GGACTTATTATTAATTCTGATAAAAGCAAATATATGATAGTCGGTAAAGCTGATGCTAGC
AATGTCGGTAGTAAATTTGATCAATATGGATATCAACAAGTCAATGAGTTGAAATATTTA
GGAGTTATTATTGACGATAAAATTAGCATCAAAACACAGCATCAAAATATTGTGTATAAA
TTGACTAACTCTTTGAGAGCTATCAAAATTATAAGAAATTTTTTACCGACAACATCAGTA
TGGCAGTTCTTCAATGCTTTTCTATCGTCACATATATACTACTGCAGCTTTATGTTAATT
AGATTGCCTATCAAAATGATAAAAAGACTCCAATCACTCCAAAGTAGAGGAATCAAATCT
GTTTACAAGCTGGATCATCAATATCCAACATTGGAACTTTTCAAGAGATATGCTCCCAAT
ACACTTCCTGTATTAGGAATTATATATTTGTCGATACTCACATTGCTGAAGAAAGCCTTG
AACGAACCAGGTGATGCTTTTGGTCGATTTGAATTGATTGCTGAAGGTAGAAGGAAGAAT
AGACTAATTATGAAAAGATTCAAAACAAATATATTGAAACATGACAGTACTTACATTGGT
CCTAAACTTTACAATCAATTACCTCAAGATGTGAGAGATACTTTTGATATAAAAGCATTC
CAACGTAAAGTTAAGCACTTACTTATTCGAAATATTGAAATAATACTTGACGAACGAAAT
TTTCAGTCAAACAGAATTGTTGCTTAG
>g8938.t1 Gene=g8938 Length=448
MPSQPYNLVKDDQDIRVPLHSDEAFYTGISFQAKFIGFQDVPRPTSRTEIVQAMRRIRYE
YKQQNAKKKKVTIEISVDGVRVCLKKRKRRMRVRKSQNWSGDLGEIEIMHHPIYRIFYVS
HDSSDLKIFSYIARDGSSDRFKCMVFKSNKKFSDLQFINLHATIIEFADDILLIWIDSQG
GIAEMIESDLKEINKYYDNNGLIINSDKSKYMIVGKADASNVGSKFDQYGYQQVNELKYL
GVIIDDKISIKTQHQNIVYKLTNSLRAIKIIRNFLPTTSVWQFFNAFLSSHIYYCSFMLI
RLPIKMIKRLQSLQSRGIKSVYKLDHQYPTLELFKRYAPNTLPVLGIIYLSILTLLKKAL
NEPGDAFGRFELIAEGRRKNRLIMKRFKTNILKHDSTYIGPKLYNQLPQDVRDTFDIKAF
QRKVKHLLIRNIEIILDERNFQSNRIVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8938.t1 | Gene3D | G3DSA:2.30.29.30 | - | 26 | 159 | 1.7E-37 |
| 2 | g8938.t1 | PANTHER | PTHR11232:SF17 | CARBOXYL-TERMINAL PDZ LIGAND OF NEURONAL NITRIC OXIDE SYNTHASE PROTEIN | 1 | 151 | 1.2E-86 |
| 3 | g8938.t1 | PANTHER | PTHR11232 | PHOSPHOTYROSINE INTERACTION DOMAIN-CONTAINING FAMILY MEMBER | 1 | 151 | 1.2E-86 |
| 1 | g8938.t1 | Pfam | PF00640 | Phosphotyrosine interaction domain (PTB/PID) | 31 | 151 | 5.4E-17 |
| 9 | g8938.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 279 | - |
| 10 | g8938.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 300 | - |
| 8 | g8938.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 301 | 448 | - |
| 7 | g8938.t1 | ProSiteProfiles | PS01179 | Phosphotyrosine interaction domain (PID) profile. | 28 | 82 | 9.612 |
| 5 | g8938.t1 | SMART | SM00462 | PTB_9 | 26 | 172 | 1.7E-20 |
| 4 | g8938.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 16 | 154 | 2.6E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K16513 (carboxyl-terminal PDZ ligand of neuronal nitric oxide synthase protein)
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.
