General information for g4410.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Endoplasmic reticulum lectin 1.
Parent gene
- The parent gene g4410 is located on chr_2: 2026298..2026781 (+ 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 | g4410 | g4410.t4 | isoform | g4410.t4 | 2025318 | 2026714 |
| chr_2 | g4410 | g4410.t4 | exon | g4410.t4.exon1 | 2025318 | 2025652 |
| chr_2 | g4410 | g4410.t4 | cds | g4410.t4.CDS1 | 2025362 | 2025652 |
| chr_2 | g4410 | g4410.t4 | exon | g4410.t4.exon2 | 2026040 | 2026211 |
| chr_2 | g4410 | g4410.t4 | cds | g4410.t4.CDS2 | 2026040 | 2026211 |
| chr_2 | g4410 | g4410.t4 | exon | g4410.t4.exon3 | 2026275 | 2026714 |
| chr_2 | g4410 | g4410.t4 | cds | g4410.t4.CDS3 | 2026275 | 2026714 |
| chr_2 | g4410 | g4410.t4 | TTS | g4410.t4 | 2026790 | 2026790 |
| chr_2 | g4410 | g4410.t4 | TSS | g4410.t4 | NA | NA |
Sequences
>g4410.t4 Gene=g4410 Length=947
ACATTAAGATAGATGGTATCAATTTGGCTTATTTTGAAGTTGAAATGGTTGATGGAACAT
TATGTGATTTGAATAATGAACCTCGAATGACAAGAGTCTTGTATGTATGCTATGCTCATG
GAAAAAATGAAATTTATTCACTCAAAGAGACTTCAACTTGTAATTATGAAATAATTGTTC
TAACACCAACACTTTGCCTTCATCCAAAATATAAATTACAAGAAAACAAGGAAAATCAAA
TTAATTGCATTCCACTTGAAAATGCACCAAAAAAGCCAAAGAGTCTACTTGCTCTTGAAG
TTGAGAGTATGAAACTTCGCTATCAAAAACTGATGGATGGAAAATTAACAATGGAACTAG
TAGAAGATGTAAATGCTAAACACATTCAAGATATTGTTAACAAACTTGATCCTTCAAATA
CTGATAATTCTAAAGCATTTACAGCAGTCACACCAGAAGATACATCAGTTGTTGAAAGCT
TCCTCGCAGGAAAAACTTGTTTAACAGGAGGTACAGGTTGGTGGAAATACGAGTTCTGTT
ATGGGAAATTTGTGCGACAATTTCATAACGATAAATTTGGTGGAATGACTACGATAATGT
TAGGCACATTTGATGAGAATAAGCATAAAGAATTTATTGATAATCATCCTGATAAGAAGC
CAAAAAACAAAGGAAAACGAAAACAGATTACACATTTTTATTCAGATGGAAGTATGTGCG
ATAAAACAGGAAAGAATCGTCAAGTTGAAGTTATATTGAAATGTAATAATGATAATGGAG
CTTCATCATCATCGGCTGTTAGTTTATATTTGGTTGAACCAAAAATGTGCAATTATGTGC
TAGGTGTAGAAAGTCAACTCATTTGCAGTATAATAGATCGTGTAGATGAATATGGTTTAA
TAAGTGAAGATGTACAAGAAATATTGCACGAAAGTGAAAAAGATTAA
>g4410.t4 Gene=g4410 Length=300
MVDGTLCDLNNEPRMTRVLYVCYAHGKNEIYSLKETSTCNYEIIVLTPTLCLHPKYKLQE
NKENQINCIPLENAPKKPKSLLALEVESMKLRYQKLMDGKLTMELVEDVNAKHIQDIVNK
LDPSNTDNSKAFTAVTPEDTSVVESFLAGKTCLTGGTGWWKYEFCYGKFVRQFHNDKFGG
MTTIMLGTFDENKHKEFIDNHPDKKPKNKGKRKQITHFYSDGSMCDKTGKNRQVEVILKC
NNDNGASSSSAVSLYLVEPKMCNYVLGVESQLICSIIDRVDEYGLISEDVQEILHESEKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4410.t4 | Gene3D | G3DSA:2.70.130.10 | - | 1 | 47 | 0.0e+00 |
| 7 | g4410.t4 | Gene3D | G3DSA:2.70.130.10 | - | 148 | 270 | 0.0e+00 |
| 2 | g4410.t4 | PANTHER | PTHR15414:SF4 | ENDOPLASMIC RETICULUM LECTIN 1 | 1 | 289 | 0.0e+00 |
| 3 | g4410.t4 | PANTHER | PTHR15414 | OS-9-RELATED | 1 | 289 | 0.0e+00 |
| 1 | g4410.t4 | Pfam | PF07915 | Glucosidase II beta subunit-like protein | 151 | 225 | 0.0e+00 |
| 5 | g4410.t4 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 2 | 51 | 2.2e-06 |
| 4 | g4410.t4 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 152 | 274 | 0.0e+00 |
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.
