General information for g12506.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Balbiani ring protein 3.
Parent gene
- The parent gene g12506 is located on chr_1: 24093277..24094576 (- 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 | g12506 | g12506.t2 | TTS | g12506.t2 | 24090834 | 24090834 |
| chr_1 | g12506 | g12506.t2 | isoform | g12506.t2 | 24090910 | 24092421 |
| chr_1 | g12506 | g12506.t2 | exon | g12506.t2.exon1 | 24090910 | 24091145 |
| chr_1 | g12506 | g12506.t2 | cds | g12506.t2.CDS1 | 24090910 | 24091145 |
| chr_1 | g12506 | g12506.t2 | exon | g12506.t2.exon2 | 24091207 | 24092421 |
| chr_1 | g12506 | g12506.t2 | cds | g12506.t2.CDS2 | 24091207 | 24092380 |
| chr_1 | g12506 | g12506.t2 | TSS | g12506.t2 | NA | NA |
Sequences
>g12506.t2 Gene=g12506 Length=1451
GCAAATGTACATGTCCACCAATAGATTGTCCACCTAATTTCATGCAAAATCCTTTTACTT
GTCAATGTATGTGCAATCAAGCAATGTCAAAAACTTGTGATACGTCAATTCAAGTGTGGA
ATCCAAAAAAATGTCAATGCGATTGCAAATTTCCAGTTGATTGCATACCAAACTACATTT
TTAATCCAAAAACATGTAAATGTGAATGCAACCAAGCTCTTTCTACATCTTGTAAGCCAC
CATTATCAATTTGGGATAAGACAAAATGTAAATGTGTTTGCAACATTGATTGTGCACCAA
ATTATATTCTTAATGAAGCAACTTGCAGTTGTGATTGCAATAAAGAACTTGTGTTATCTA
CTTGTGATCTCAACACTCATGTTTTTAATCCTGATAAATGTTCGTGTGATTGCAAACCAA
TTGTATGCCCTCCCAACTTTATTCAAAATCCTAAGACATGCAAATGTGACTGTGCACTTA
CTCAAGCTAGCTGTCCAGCTCCTCAAATTTTTGTACCCGAAAAATGTGCTTGCATTTGTG
ATCCAACGATTTCATGTGCACCAAATTATATCATAGATCCAGCTACTTGTACATGTGTTT
GTGATAGTAAAACAGTTGCTGCCACTTGCATTCCAAATGTTCAAATTTTTGTTCCTGACA
CTTGTAGCTGTCGTTGTATTCATCCAATCGATTGTCTTCCAAATTATATTGGATTTTCAT
CAAATTGTAGCTGTGTTTGCGATTGGTCACTTGCTGCACCATGTGTGGCTAATGGTGGAA
CTTTTGATTATGCTAATTGTAAATGTAATACAAATCCTTGTTCTGGAGTTGTTTGTCCAC
CAAATTTCATACCTGATGCTGCTTGTAATTGTGTTTGTAATCAAGCATTAGCAACATCTT
GTGATCCAACTATTCAAAGATGGAATCCTGATCTTTGTAAATGTGAATGCATTAAAGTTA
ATGCAGATGGTACACCAATTTGCAATGGAAATCAAATTCAAGATCCTGTTTCTTGTAAAT
GCATTTGTGATCCAAATGCTGAAAAAAAATGCTTAACGCAACCAAATCATGTTTGGGATC
CGAATACATGCACTTGCGTTTGCAAGCAACTTGTCGATTGTCCAACTGGTTTCAAATTTG
ATCAAGCATCATGCTCATGTGTTTGTGTACAACAAATAGATTGTGTTCAACCTTTGATTT
TCAATACAACTTTATGTAAATGTGCATGTCCAAAACCATGTCCTCCGAATTATATTCAAG
ATCCCTTAAAATGCACATGCACTTGTAATGAGAAACTTGTAGTATCAACCTGTGATTTAA
ACACTCACGTTTTTAATTCAGCTTCATGTAGCTGTGACTGCAAACCAAATGGAATTGCGT
GTCCAAATGGATCTATTTTAGATCCTATCAATTGTAAAGATTGCATTGTTGTTCCTCCTA
ATCCTGCATAA
>g12506.t2 Gene=g12506 Length=469
MQNPFTCQCMCNQAMSKTCDTSIQVWNPKKCQCDCKFPVDCIPNYIFNPKTCKCECNQAL
STSCKPPLSIWDKTKCKCVCNIDCAPNYILNEATCSCDCNKELVLSTCDLNTHVFNPDKC
SCDCKPIVCPPNFIQNPKTCKCDCALTQASCPAPQIFVPEKCACICDPTISCAPNYIIDP
ATCTCVCDSKTVAATCIPNVQIFVPDTCSCRCIHPIDCLPNYIGFSSNCSCVCDWSLAAP
CVANGGTFDYANCKCNTNPCSGVVCPPNFIPDAACNCVCNQALATSCDPTIQRWNPDLCK
CECIKVNADGTPICNGNQIQDPVSCKCICDPNAEKKCLTQPNHVWDPNTCTCVCKQLVDC
PTGFKFDQASCSCVCVQQIDCVQPLIFNTTLCKCACPKPCPPNYIQDPLKCTCTCNEKLV
VSTCDLNTHVFNSASCSCDCKPNGIACPNGSILDPINCKDCIVVPPNPA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12506.t2 | PANTHER | PTHR11633:SF1 | LD28763P | 1 | 82 | 0.0000 |
| 7 | g12506.t2 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 1 | 82 | 0.0000 |
| 3 | g12506.t2 | PANTHER | PTHR11633:SF1 | LD28763P | 92 | 170 | 0.0000 |
| 6 | g12506.t2 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 92 | 170 | 0.0000 |
| 5 | g12506.t2 | PANTHER | PTHR11633:SF1 | LD28763P | 314 | 380 | 0.0000 |
| 8 | g12506.t2 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 314 | 380 | 0.0000 |
| 2 | g12506.t2 | Pfam | PF03128 | CXCXC repeat | 46 | 56 | 0.0240 |
| 1 | g12506.t2 | Pfam | PF03128 | CXCXC repeat | 342 | 354 | 0.0056 |
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 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