General information for g8685.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein ERGIC-53.
Parent gene
- The parent gene g8685 is located on chr_2: 32238641..32239427 (+ 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 | g8685 | g8685.t1 | TSS | g8685.t1 | 32237518 | 32237518 |
| chr_2 | g8685 | g8685.t1 | isoform | g8685.t1 | 32237535 | 32239427 |
| chr_2 | g8685 | g8685.t1 | exon | g8685.t1.exon1 | 32237535 | 32237685 |
| chr_2 | g8685 | g8685.t1 | cds | g8685.t1.CDS1 | 32237535 | 32237685 |
| chr_2 | g8685 | g8685.t1 | exon | g8685.t1.exon2 | 32238067 | 32239427 |
| chr_2 | g8685 | g8685.t1 | cds | g8685.t1.CDS2 | 32238067 | 32239427 |
| chr_2 | g8685 | g8685.t1 | TTS | g8685.t1 | 32239784 | 32239784 |
Sequences
>g8685.t1 Gene=g8685 Length=1512
ATGAACGGTCGGGAGTTTTTAATTTTATTTCTTTATTTCTTAAGTACCAATGCAAATCAA
ATACATCGGAGATTTGAATATAAATACTCCTTTAAGCCTCCATATTTAGCACAGAAAGAT
AACACGGTACCATTTTTTGAAGTTTTTGGAAATGCTATTGCTTCAAGTGAATCGATTAGA
GTTGCACCGTCATTAAGAAGCCAAAAGGGATCAGTCTGGACGAAATCAAAGACAACATTC
GATTGGTGGGAAGTTGACATTGCTTTTAGAATATCAGGTCGTGGTCGAATTGGTGCTGAT
GGCTTAGCATTTTGGTACACATCAGAAAAAGGCGATTATAATGGTGAAGTTTTTGGATCA
TCAGATAAGTGGAATGGTCTTGCAGTTATTTTCGATTCATTTGACAATGATAACAAACAT
AATAATCCTTACATTATGGCCATGATTAATGATGGAACTCGTAAATTTGATCATCAAAAT
GATGGACAAAATCAAGCTTTGGCAGGATGTCTTAGAGACTTTAGAAATAAGCCATTTCCA
ACACGTGCCAAGATTGAATATTACAACAATGTCCTTACTGTTTTATTCCATAGTGGAATG
ACTAATAATGAGCAAGATTATGAAATGTGCTTACGTGCTGAAAATGTTGTCCTTCCTAAA
AACGGTCATTTTGGAATTTCAGCAGCTACTGGTGGTTTAGCTGATGATCATGATGTTTTC
CATCTTCTTACAACATCACTTTATCCACCTGGACAAATTGACACGATTGGTCAAGTTCCA
GCACCAGATAATGAAAAGATTTCACAGGAATACAAAGAATATCAACAGAAATTGGAAAGA
CAAAAAGAGGAATATAAGAAAGAGCATCCAGATGAACAAAAAGATGATTTAGAAGATTGG
TTTGAGACTGATAATCAACGTGAACTTCGTCAAATTTGGCAAGCACAAACACAAACTGCT
GAAATTCTTCGTGAACTATCAAGAAAATTAGATGAGGTGCTAGGAAGACAAGAGAGAACC
TTGGGTTTGATATCAGCATCGGCAAATCAGGTAGCTTCAGGTGGCGCACAACAACAACCT
CAATATCAACAGCAGCAGCAACAATTTAATACTGGCACAGATAGTGGAATAAGACGTCAA
GAAGTTGATAATTTGATCAATACACAAAATATTTTAGTGCAATCAATTCGTGACTTAAAA
ACTCAACTCAATGATTTAAATCAAAGATCAGAAATGCTTATAACAAACCAAAAACAAGGA
GGCTCACAAGGAGGAGCTTTCGATATGCACAGTCTCGTAACTGAAATGCGTGATGGAATG
AATCAAGTAAAAATGTCAGTGGCAGGAGTTCAAGCTCGTGTCAATCAACCACAGCCACTT
CAATCATGTCCTACAAGTAATTGCTTAGGACTTACTCCATTTTTAATTGCCATAGCTGTG
CAATTAGTAATCATTCTAGGATACAATATGTATAGAGAAGCTAAGGGCAATCAGTCAAAG
AAATTCTATTAA
>g8685.t1 Gene=g8685 Length=503
MNGREFLILFLYFLSTNANQIHRRFEYKYSFKPPYLAQKDNTVPFFEVFGNAIASSESIR
VAPSLRSQKGSVWTKSKTTFDWWEVDIAFRISGRGRIGADGLAFWYTSEKGDYNGEVFGS
SDKWNGLAVIFDSFDNDNKHNNPYIMAMINDGTRKFDHQNDGQNQALAGCLRDFRNKPFP
TRAKIEYYNNVLTVLFHSGMTNNEQDYEMCLRAENVVLPKNGHFGISAATGGLADDHDVF
HLLTTSLYPPGQIDTIGQVPAPDNEKISQEYKEYQQKLERQKEEYKKEHPDEQKDDLEDW
FETDNQRELRQIWQAQTQTAEILRELSRKLDEVLGRQERTLGLISASANQVASGGAQQQP
QYQQQQQQFNTGTDSGIRRQEVDNLINTQNILVQSIRDLKTQLNDLNQRSEMLITNQKQG
GSQGGAFDMHSLVTEMRDGMNQVKMSVAGVQARVNQPQPLQSCPTSNCLGLTPFLIAIAV
QLVIILGYNMYREAKGNQSKKFY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g8685.t1 | CDD | cd06902 | lectin_ERGIC-53_ERGL | 23 | 247 | 1.47835E-156 |
| 8 | g8685.t1 | Coils | Coil | Coil | 264 | 295 | - |
| 7 | g8685.t1 | Coils | Coil | Coil | 389 | 416 | - |
| 6 | g8685.t1 | Gene3D | G3DSA:2.60.120.200 | - | 21 | 254 | 3.5E-94 |
| 18 | g8685.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 352 | 373 | - |
| 2 | g8685.t1 | PANTHER | PTHR12223 | VESICULAR MANNOSE-BINDING LECTIN | 17 | 502 | 1.3E-130 |
| 3 | g8685.t1 | PANTHER | PTHR12223:SF32 | PROTEIN ERGIC-53 | 17 | 502 | 1.3E-130 |
| 1 | g8685.t1 | Pfam | PF03388 | Legume-like lectin family | 24 | 247 | 9.3E-90 |
| 11 | g8685.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 12 | g8685.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 13 | g8685.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 14 | - |
| 15 | g8685.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 18 | - |
| 10 | g8685.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 468 | - |
| 14 | g8685.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
| 9 | g8685.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 492 | 503 | - |
| 19 | g8685.t1 | ProSiteProfiles | PS51328 | L-type lectin-like (leguminous) domain profile. | 23 | 247 | 63.13 |
| 4 | g8685.t1 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 21 | 250 | 1.09E-71 |
| 5 | g8685.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 17 | g8685.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 491 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
| GO:0006888 | endoplasmic reticulum to Golgi vesicle-mediated transport | BP |
| GO:0005537 | mannose binding | MF |
KEGG
Orthology
- This transcript has been annotated with K10080 (lectin, mannose-binding 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.
