General information for g4410.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t2 | TSS | g4410.t2 | 2016976 | 2016976 |
| chr_2 | g4410 | g4410.t2 | isoform | g4410.t2 | 2017049 | 2025646 |
| chr_2 | g4410 | g4410.t2 | exon | g4410.t2.exon1 | 2017049 | 2017174 |
| chr_2 | g4410 | g4410.t2 | cds | g4410.t2.CDS1 | 2017049 | 2017174 |
| chr_2 | g4410 | g4410.t2 | exon | g4410.t2.exon2 | 2024969 | 2025646 |
| chr_2 | g4410 | g4410.t2 | cds | g4410.t2.CDS2 | 2024969 | 2025646 |
| chr_2 | g4410 | g4410.t2 | TTS | g4410.t2 | 2026428 | 2026428 |
Sequences
>g4410.t2 Gene=g4410 Length=804
ATGAAAGCAAATATAGTAACGTTGCTAATAGTCTGTTATTCATGTGTATCAATTAATGCA
ACAGATTTTAAAGGATTTGACGATAATATCTTATTTTCTCTAAATTTTCCTGGTGAAATT
TTGTTGGATACAAGTGAAAGTGAAGAAAGTATAAAGATAATAACGCAAGCAAATGAAAAG
TATGAGTGCCATCTACCAAGATTAAATACAAAAGATGACAGTCTAGAAAAAACAACTTTG
GAAACTTCTGTTCTTGATTATTTAGAACCTTTATTTAGAGGAGATGTCTGTTCCTATCGC
ATTGAATCATACTGGAGTTATGAAATTTGTCATGGCAATTTTGTAAAACAGTATCACGAA
GAACGAGATGGAAAAACTAGCCGACTTCAGGAGTATTATTTAGGCAAATGGAACAAACAA
ATGACATCAGCTCTGCGGACCAAATTAGAAGTAAACAAGGACGAAAAGTTAAAATACATT
AAGATAGATGGTATCAATTTGGCTTATTTTGAAGTTGAAATGGTTGATGGAACATTATGT
GATTTGAATAATGAACCTCGAATGACAAGAGTCTTGTATGTATGCTATGCTCATGGAAAA
AATGAAATTTATTCACTCAAAGAGACTTCAACTTGTAATTATGAAATAATTGTTCTAACA
CCAACACTTTGCCTTCATCCAAAATATAAATTACAAGAAAACAAGGAAAATCAAATTAAT
TGCATTCCACTTGAAAATGCACCAAAAAAGCCAAAGAGTCTACTTGCTCTTGAAGTTGAG
AGTATGAAACTTCGCTATCAAAAA
>g4410.t2 Gene=g4410 Length=268
MKANIVTLLIVCYSCVSINATDFKGFDDNILFSLNFPGEILLDTSESEESIKIITQANEK
YECHLPRLNTKDDSLEKTTLETSVLDYLEPLFRGDVCSYRIESYWSYEICHGNFVKQYHE
ERDGKTSRLQEYYLGKWNKQMTSALRTKLEVNKDEKLKYIKIDGINLAYFEVEMVDGTLC
DLNNEPRMTRVLYVCYAHGKNEIYSLKETSTCNYEIIVLTPTLCLHPKYKLQENKENQIN
CIPLENAPKKPKSLLALEVESMKLRYQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4410.t2 | Gene3D | G3DSA:2.70.130.10 | - | 94 | 220 | 1.2E-33 |
| 2 | g4410.t2 | PANTHER | PTHR15414:SF4 | ENDOPLASMIC RETICULUM LECTIN 1 | 22 | 261 | 9.4E-71 |
| 3 | g4410.t2 | PANTHER | PTHR15414 | OS-9-RELATED | 22 | 261 | 9.4E-71 |
| 1 | g4410.t2 | Pfam | PF07915 | Glucosidase II beta subunit-like protein | 96 | 180 | 9.6E-14 |
| 8 | g4410.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 9 | g4410.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 10 | g4410.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 11 | g4410.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 7 | g4410.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 268 | - |
| 4 | g4410.t2 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 171 | 224 | 8.63E-7 |
| 5 | g4410.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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.
