General information for g13839.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein Mo25.
Parent gene
- The parent gene g13839 is located on chr_1: 32737232..32737698 (- 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 | g13839 | g13839.t4 | isoform | g13839.t4 | 32734276 | 32737640 |
| chr_1 | g13839 | g13839.t4 | exon | g13839.t4.exon1 | 32734276 | 32735187 |
| chr_1 | g13839 | g13839.t4 | TTS | g13839.t4 | 32734283 | 32734283 |
| chr_1 | g13839 | g13839.t4 | cds | g13839.t4.CDS1 | 32734978 | 32735187 |
| chr_1 | g13839 | g13839.t4 | exon | g13839.t4.exon2 | 32735256 | 32735360 |
| chr_1 | g13839 | g13839.t4 | cds | g13839.t4.CDS2 | 32735256 | 32735360 |
| chr_1 | g13839 | g13839.t4 | exon | g13839.t4.exon3 | 32735434 | 32735598 |
| chr_1 | g13839 | g13839.t4 | cds | g13839.t4.CDS3 | 32735434 | 32735598 |
| chr_1 | g13839 | g13839.t4 | exon | g13839.t4.exon4 | 32735665 | 32736093 |
| chr_1 | g13839 | g13839.t4 | cds | g13839.t4.CDS4 | 32735665 | 32736078 |
| chr_1 | g13839 | g13839.t4 | exon | g13839.t4.exon5 | 32737391 | 32737640 |
| chr_1 | g13839 | g13839.t4 | TSS | g13839.t4 | 32737725 | 32737725 |
Sequences
>g13839.t4 Gene=g13839 Length=1861
ATGCCTTTTTTTGGTAAATCACAGAAATCTCCAGCCGAGCTTGTGAAGGTAATAACTCTA
GATGACTATAAGCTTTAAAAAAGTAAAATTTAAAATAAATTGACAATTTTTCTCTCCACA
TATACCTCTTCTCTTTTGATGGTGAATATATTATTAGGCTCTAAAAGAGGCTCTGAAAGC
ATTAGAAACGCTTAAAGCGGGTGGTGATAAAAAGGCAGAAAAGGCACAGGAGGATGTCAG
TAAAAATCTGGTGTCAATCAAAAATATGCTCTATGGGACATCAGATTCGGAGCCTCAAAC
AGATATTGTCGTATCACAATTAGCACAGGAACTGTATAATAGTAATCTTCTTCTCCTACT
CATACAAAATCTTAATCAAATTGACTTTGAAGGCAAAAAAGATGTTGCACTAGTGTTCAA
TAATGTACTTAGAAGACAAATCGGAACTCGTTCACCGACTGTCGAATATATCTGCACGAA
ACCTGAAATTTTATTTACACTCATGGCTGGTTACGAACATCAAGAAATAGCACTCAATTG
CGGCACAATGCTGCGAGAATGTGCACGCTATGAGGCACTCGCTAAAATCATGCTTTATTC
AGATGAGTTCTTCAACTTTTTCCAGTACGTTGAAGTGTCAACATTCGATATCGCTAGCGA
TGCATTTTCAACTTTTAAGGAACTGCTTACCCGTCATAAAATTCTTTGTGCGGAATTTTT
GGAAACGAATTATGATAAAGTTTTTACTCATTACCAACGGTTATTGAATTCAGAAAACTA
CGTTACAAGACGTCAGAGCTTGAAGCTTCTTGGCGAATTGTTGCTTGATCGTCACAATTT
TACGGTGATGACGAAATACATTTCAAATCCCGACAATTTAAAATTGATGATGAATATGTT
GAGAGAAAAATCAAGAAACATTCAATTTGAAGCCTTCCATGTTTTTAAGGTTTTTGTGGC
CAATCCTAATAAACCCAAGCCAATATTGGAAATTCTATTGCGCAATCAAGATAAGCTTGT
TGATTTTCTTACACGCTTTCATACGGAACGAAGTGAAGATGAACAGTTTAATGACGAGAA
AGCATACCTTATTAAGCAAATAAAGGAGTTGAAACCGATTCAAACAGACGGCACATCACA
ATCATCTCAGCAGCAATAGCCCGTTAATTAAGTTTCTCCTTTTATTTCTCTTTGATCTAT
AATTTCTTCATTTACTTTAATAATGAAAATTAAATGCATGCAAAAGAATCCTTTTTTAAA
AGATTATTTTTTTCTCTATACAAGTTCTTTTGCAATGACCATTTTTATTTTGTGGTGTTT
CTTCTTTTCTCTACTACTCTTTTCACGAAACAAAAACAATTATCGCGATAATTTGATTGA
TACATTCAAATAAAAAAAAATTTAAGTTGTAAATCCCTCCTCATTATCCTTTTTAGTGGA
TTAAATGGATGATGGGTATTTTTTTGGAAAGAAAATTTTATTTATATAAGAAGCAAATAT
GTTATCAAGATTAACAGTTTTTCAACAAAAAAATCTTTTACTATTTTTTTTTTAAATTAA
TTTTAGCAAAATGATTTTACTAAAATCAAACACAACAAAGTATATTTTTCCAAGACTTTA
ATAGAACTATCATACACCGATTTTTATTAAGTTTTCTTTCCACATTTGTAATGAATTTAT
TGGAGAAGAAGAGCAGAAAATTGATAGTTAGAAAGAATATATGAGGAGAAAGTTGAGTTC
ATTGCGAAATTATTTAATTGATATAAATATAATTTATTCATTAAAACATTTTCCTGATAG
AAGATTGTTAAGATCGATACATTGATAAAATAGATTTAGAGATAAAAACGCTGGAAAATT
T
>g13839.t4 Gene=g13839 Length=297
MLYGTSDSEPQTDIVVSQLAQELYNSNLLLLLIQNLNQIDFEGKKDVALVFNNVLRRQIG
TRSPTVEYICTKPEILFTLMAGYEHQEIALNCGTMLRECARYEALAKIMLYSDEFFNFFQ
YVEVSTFDIASDAFSTFKELLTRHKILCAEFLETNYDKVFTHYQRLLNSENYVTRRQSLK
LLGELLLDRHNFTVMTKYISNPDNLKLMMNMLREKSRNIQFEAFHVFKVFVANPNKPKPI
LEILLRNQDKLVDFLTRFHTERSEDEQFNDEKAYLIKQIKELKPIQTDGTSQSSQQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13839.t4 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 282 | 0 |
| 2 | g13839.t4 | PANTHER | PTHR10182:SF18 | CALCIUM-BINDING PROTEIN 39,-LIKE 1 | 2 | 284 | 0 |
| 3 | g13839.t4 | PANTHER | PTHR10182 | CALCIUM-BINDING PROTEIN 39-RELATED | 2 | 284 | 0 |
| 1 | g13839.t4 | Pfam | PF08569 | Mo25-like | 1 | 283 | 0 |
| 4 | g13839.t4 | SUPERFAMILY | SSF48371 | ARM repeat | 1 | 285 | 0 |
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 K08272 (calcium binding protein 39)
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.
