General information for g4410.t1
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.t1 | TSS | g4410.t1 | 2016976 | 2016976 |
| chr_2 | g4410 | g4410.t1 | isoform | g4410.t1 | 2017049 | 2026714 |
| chr_2 | g4410 | g4410.t1 | exon | g4410.t1.exon1 | 2017049 | 2017174 |
| chr_2 | g4410 | g4410.t1 | cds | g4410.t1.CDS1 | 2017049 | 2017174 |
| chr_2 | g4410 | g4410.t1 | exon | g4410.t1.exon2 | 2024969 | 2025652 |
| chr_2 | g4410 | g4410.t1 | cds | g4410.t1.CDS2 | 2024969 | 2025652 |
| chr_2 | g4410 | g4410.t1 | exon | g4410.t1.exon3 | 2025862 | 2025915 |
| chr_2 | g4410 | g4410.t1 | cds | g4410.t1.CDS3 | 2025862 | 2025915 |
| chr_2 | g4410 | g4410.t1 | exon | g4410.t1.exon4 | 2026040 | 2026211 |
| chr_2 | g4410 | g4410.t1 | cds | g4410.t1.CDS4 | 2026040 | 2026211 |
| chr_2 | g4410 | g4410.t1 | exon | g4410.t1.exon5 | 2026275 | 2026714 |
| chr_2 | g4410 | g4410.t1 | cds | g4410.t1.CDS5 | 2026275 | 2026714 |
| chr_2 | g4410 | g4410.t1 | TTS | g4410.t1 | 2026790 | 2026790 |
Sequences
>g4410.t1 Gene=g4410 Length=1476
ATGAAAGCAAATATAGTAACGTTGCTAATAGTCTGTTATTCATGTGTATCAATTAATGCA
ACAGATTTTAAAGGATTTGACGATAATATCTTATTTTCTCTAAATTTTCCTGGTGAAATT
TTGTTGGATACAAGTGAAAGTGAAGAAAGTATAAAGATAATAACGCAAGCAAATGAAAAG
TATGAGTGCCATCTACCAAGATTAAATACAAAAGATGACAGTCTAGAAAAAACAACTTTG
GAAACTTCTGTTCTTGATTATTTAGAACCTTTATTTAGAGGAGATGTCTGTTCCTATCGC
ATTGAATCATACTGGAGTTATGAAATTTGTCATGGCAATTTTGTAAAACAGTATCACGAA
GAACGAGATGGAAAAACTAGCCGACTTCAGGAGTATTATTTAGGCAAATGGAACAAACAA
ATGACATCAGCTCTGCGGACCAAATTAGAAGTAAACAAGGACGAAAAGTTAAAATACATT
AAGATAGATGGTATCAATTTGGCTTATTTTGAAGTTGAAATGGTTGATGGAACATTATGT
GATTTGAATAATGAACCTCGAATGACAAGAGTCTTGTATGTATGCTATGCTCATGGAAAA
AATGAAATTTATTCACTCAAAGAGACTTCAACTTGTAATTATGAAATAATTGTTCTAACA
CCAACACTTTGCCTTCATCCAAAATATAAATTACAAGAAAACAAGGAAAATCAAATTAAT
TGCATTCCACTTGAAAATGCACCAAAAAAGCCAAAGAGTCTACTTGCTCTTGAAGTTGAG
AGTATGAAACTTCGCTATCAAAAACTGATGGATGTTAATAAGGGTCTAAAAGAAGCTATA
GCCGTATTTAAGTTAGATTCTAAGGATGGAAAATTAACAATGGAACTAGTAGAAGATGTA
AATGCTAAACACATTCAAGATATTGTTAACAAACTTGATCCTTCAAATACTGATAATTCT
AAAGCATTTACAGCAGTCACACCAGAAGATACATCAGTTGTTGAAAGCTTCCTCGCAGGA
AAAACTTGTTTAACAGGAGGTACAGGTTGGTGGAAATACGAGTTCTGTTATGGGAAATTT
GTGCGACAATTTCATAACGATAAATTTGGTGGAATGACTACGATAATGTTAGGCACATTT
GATGAGAATAAGCATAAAGAATTTATTGATAATCATCCTGATAAGAAGCCAAAAAACAAA
GGAAAACGAAAACAGATTACACATTTTTATTCAGATGGAAGTATGTGCGATAAAACAGGA
AAGAATCGTCAAGTTGAAGTTATATTGAAATGTAATAATGATAATGGAGCTTCATCATCA
TCGGCTGTTAGTTTATATTTGGTTGAACCAAAAATGTGCAATTATGTGCTAGGTGTAGAA
AGTCAACTCATTTGCAGTATAATAGATCGTGTAGATGAATATGGTTTAATAAGTGAAGAT
GTACAAGAAATATTGCACGAAAGTGAAAAAGATTAA
>g4410.t1 Gene=g4410 Length=491
MKANIVTLLIVCYSCVSINATDFKGFDDNILFSLNFPGEILLDTSESEESIKIITQANEK
YECHLPRLNTKDDSLEKTTLETSVLDYLEPLFRGDVCSYRIESYWSYEICHGNFVKQYHE
ERDGKTSRLQEYYLGKWNKQMTSALRTKLEVNKDEKLKYIKIDGINLAYFEVEMVDGTLC
DLNNEPRMTRVLYVCYAHGKNEIYSLKETSTCNYEIIVLTPTLCLHPKYKLQENKENQIN
CIPLENAPKKPKSLLALEVESMKLRYQKLMDVNKGLKEAIAVFKLDSKDGKLTMELVEDV
NAKHIQDIVNKLDPSNTDNSKAFTAVTPEDTSVVESFLAGKTCLTGGTGWWKYEFCYGKF
VRQFHNDKFGGMTTIMLGTFDENKHKEFIDNHPDKKPKNKGKRKQITHFYSDGSMCDKTG
KNRQVEVILKCNNDNGASSSSAVSLYLVEPKMCNYVLGVESQLICSIIDRVDEYGLISED
VQEILHESEKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4410.t1 | Gene3D | G3DSA:2.70.130.10 | - | 94 | 220 | 4.3E-33 |
| 8 | g4410.t1 | Gene3D | G3DSA:2.70.130.10 | - | 339 | 461 | 1.4E-28 |
| 3 | g4410.t1 | PANTHER | PTHR15414:SF4 | ENDOPLASMIC RETICULUM LECTIN 1 | 22 | 480 | 1.9E-128 |
| 4 | g4410.t1 | PANTHER | PTHR15414 | OS-9-RELATED | 22 | 480 | 1.9E-128 |
| 1 | g4410.t1 | Pfam | PF07915 | Glucosidase II beta subunit-like protein | 96 | 180 | 2.8E-13 |
| 2 | g4410.t1 | Pfam | PF07915 | Glucosidase II beta subunit-like protein | 342 | 416 | 1.4E-17 |
| 11 | g4410.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g4410.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g4410.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 14 | g4410.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 10 | g4410.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 491 | - |
| 5 | g4410.t1 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 171 | 224 | 1.24E-6 |
| 6 | g4410.t1 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 343 | 465 | 3.14E-9 |
| 7 | g4410.t1 | 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 transcript has been annotated with K14008 (endoplasmic reticulum lectin 1)
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.
