General information for g4685.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein limb expression 1-like protein.
Parent gene
- The parent gene g4685 is located on chr_2: 4170604..4171754 (+ 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 | g4685 | g4685.t3 | isoform | g4685.t3 | 4163169 | 4171754 |
| chr_2 | g4685 | g4685.t3 | exon | g4685.t3.exon1 | 4163169 | 4163465 |
| chr_2 | g4685 | g4685.t3 | TSS | g4685.t3 | 4163246 | 4163246 |
| chr_2 | g4685 | g4685.t3 | TTS | g4685.t3 | 4163538 | 4163538 |
| chr_2 | g4685 | g4685.t3 | exon | g4685.t3.exon2 | 4167787 | 4167911 |
| chr_2 | g4685 | g4685.t3 | exon | g4685.t3.exon3 | 4170092 | 4170247 |
| chr_2 | g4685 | g4685.t3 | exon | g4685.t3.exon4 | 4170326 | 4170521 |
| chr_2 | g4685 | g4685.t3 | exon | g4685.t3.exon5 | 4170604 | 4171754 |
| chr_2 | g4685 | g4685.t3 | cds | g4685.t3.CDS1 | 4170656 | 4170973 |
Sequences
>g4685.t3 Gene=g4685 Length=1925
GAAAAAGGAAAAAACCCTAGCAGTATCCAAAGCAGCAAAGTATATTGTTGTATGTTTTGT
TAAAATGCTTTCCTGCTCAGTTTTATGTATGGTGTATCGTTGTAATGACGTGTGTTTTTT
ATACTGCTCCGGTCTTGATATATATTAAAAATATAATTTTTGTGCTGCATGCAGATTAAG
TAAATAGAAGCAGTTGGACGAAGGAGAGAAATTAAAAGCACATACGATTCTCGCGAAGTG
CTGATTGTGAAGAAGTGAAATTAAAAATTAAGAAAGTTCTTTGTAAAAATCAATCAGTGA
AAAAAAATAGAGCCAGGATTGAATCAAAAGTGACCTGAAAATGATGGTGTATCCAGAGGA
GCCATCAATTTGGTCAATTCCACATCTTCCTGCATTATATGAAGACGATGGCGATTACGG
CGTGAATGTCGTTGAGGCTTTACAAGAATTTTGGCAAATGAAACAGGCTCGTGGCGCTGA
TTTAAAGAATGGCGCATTAGTCATTTATGAGTCGGTTCCCTCAACAAGTCAACCATATGT
TTGCTACGTTACATTACCTGGAGGTAGTTGCTTTGGTAAATTGTCCGACAAAGGCAGAAG
CACGAAGAAGCTCAGCAAAAATCGCACTCATGAATTCAGTTTTTAATGAACATCCATCAC
GACGAATAAGTGATGAATTTATAGAAAAAGCTGTAAATGAGGCGAGAGCATCGTTTAAAG
GTGATAGTGGTGCAGACGATGATGATAGTAGTGCTGATGATGGAGGTGGTGTTGATTTAT
GCTTGAATCAAATAAAGGAAGAACAATGCTTGAATTTCAAGAGCTAATGACAGTTTTTCA
ACTACTTCATTGGAATGGATCATTAAAAGCAATGCGTGAAAGACAATGTTCTCGTCAAGA
AGTTGTTGCTCACTATTCAAATCGATCATTAGACGATGATATGCGTACTCAAATGGCTCT
TGATTGGATTGCACGTGAGCAAGAGAATCCTGGCACACTGAGTCGTGAATTGTCACAAGC
TGAGAGAGAATTAGAGACTGCGAGACTTGCCGGTCGGGAACTTAGATTTCCGAAAGAAAA
GAAAGACATTTTGATGCTCGCACTCACACAAATGGGCGGTGGTAATAATACGATGAACAG
TTGAACTGTCATGAAGAAATGTTAGCTGGTTTTTCTTTCTTTTTTGCCATCTTTCTTGAA
ATTTTCTTATTTTTTTTGCATTTAAAATGTAACACAAATTAATTTTTAAGAAATATTGAA
AGTTTTTTTATCTATTAGATTTTAAGATAGAAATTTTAAAAAAATCAAAACAAAATAAAT
TTAAAGCTCAAGTTATTGTGATTACAAGCAAGTAGAAATTAGAATTTTCTTTTTTGAAAT
TAAGCAATATTTTTCTTCTTTTAACAGTTTTTTTTCATAAACAATTATAACACAGTACAT
GAAGAAATAGTTTAACATTTCATTTGGTGGCGGTCGTCAATTCAAACTATCAAAACAAAT
CAAATAAATGAAAATAGTTTAAGTTAAAACACACAAATATGCAGTTACTTGAAATGGAAT
AATATTTTGTACATAATTCTATCTTAAAACATTAAATTTCTTCTTTTTTAAACTTTAACA
AACTTTTCAAATTTATAATTTTGAAAACTGTTAAATTTAAAAAATTTATTTTGAAAGAAA
AAATTCCTAATATTTCAATCATTCTAATAAAATTAAAATTAAAATATTTTGGAAACAAAT
CGATACTAAAGTATTTTGGCCAAAATCTTGAAAATGAAAACAAAAAATTGTGATTTTTGG
AAACGAGTAAAAAGAGAAAAATATTTTTATATCACGATAGAAGAAATCAATTGTAAAATA
AAAATTTTATTTTCTAATCTTTAATGAGATATGAAAGTTTATTAAATAAAAGCAAAAAAT
TAAAA
>g4685.t3 Gene=g4685 Length=105
MTVFQLLHWNGSLKAMRERQCSRQEVVAHYSNRSLDDDMRTQMALDWIAREQENPGTLSR
ELSQAERELETARLAGRELRFPKEKKDILMLALTQMGGGNNTMNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g4685.t3 | PANTHER | PTHR31139 | ECTOPIC P GRANULES PROTEIN 5 HOMOLOG | 1 | 101 | 0 |
| 3 | g4685.t3 | PANTHER | PTHR31139:SF5 | PROTEIN LIMB EXPRESSION 1 HOMOLOG | 1 | 101 | 0 |
| 1 | g4685.t3 | Pfam | PF14954 | Limb expression 1 | 1 | 95 | 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 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