General information for g15176.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15176 is located on chr_4: 4376598..4377510 (+ 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_4 | g15176 | g15176.t1 | isoform | g15176.t1 | 4376598 | 4377510 |
| chr_4 | g15176 | g15176.t1 | exon | g15176.t1.exon1 | 4376598 | 4376847 |
| chr_4 | g15176 | g15176.t1 | cds | g15176.t1.CDS1 | 4376598 | 4376847 |
| chr_4 | g15176 | g15176.t1 | exon | g15176.t1.exon2 | 4376908 | 4377300 |
| chr_4 | g15176 | g15176.t1 | cds | g15176.t1.CDS2 | 4376908 | 4377300 |
| chr_4 | g15176 | g15176.t1 | exon | g15176.t1.exon3 | 4377362 | 4377510 |
| chr_4 | g15176 | g15176.t1 | cds | g15176.t1.CDS3 | 4377362 | 4377510 |
| chr_4 | g15176 | g15176.t1 | TSS | g15176.t1 | NA | NA |
| chr_4 | g15176 | g15176.t1 | TTS | g15176.t1 | NA | NA |
Sequences
>g15176.t1 Gene=g15176 Length=792
ATGCATCAAGTTCACATTTTATGTCCACTTTATGACAAAAGCACAAATGAAAATGAAACA
GAAAAATATATAATTTATAATGTCTCAAAAGTCGAATATGAAACATGTCGCATAACAAAT
CCAAATCCAAGAATTATCGCCATTTGTGATAAGCCATATACTATCAATCTTGTGACTATT
TCATTTAGGCCTTTTACACCACAGCCTGGTGGACTTGAATTTAAACCTGGAAAGGATTAT
TACTTTATATCAACATCGACTGATGGTGATATGCATCGTCGCATAGGTGGTCGTTGTCAA
AGTCATCACACAAAAGTTATTTTCAAAGTTTTCGGTGGCGATACTGAAGCACAAAAAACA
ACAACGCCAAAGACTACTACCAGCACTACACCAGAGCCACGTAAGCGAGCACCACCACAT
ATTGATTGGGAGTCGCCTGGCAATGCATGGCGAAATCATCATAACGATGAACCATACGGT
GATCATCGACAATCTTCTGATGTTTCACCTCCACAATATGGTAATCGAATCAATCAAGCG
CATTCGTCGACACAGCGACCAGTCTTTGTAAATAGCAACAATAATGGTTATGGAAGTTCA
GGCACTTCTGGTTTTACTGTCAATAAGCCCACGAAGAAAACAAATGATTATGACACAAGA
CAGAATGAAGTAATTAAAACAGAAGAGTTAACTTATAACAACAACTCATCAAGTATTAGT
CACTGCATTAGTCATTCAATGGTTTTCTTTAGTCTCATCATTGCCGTACTTTCACAAGTG
CTTAAAAAGTAA
>g15176.t1 Gene=g15176 Length=263
MHQVHILCPLYDKSTNENETEKYIIYNVSKVEYETCRITNPNPRIIAICDKPYTINLVTI
SFRPFTPQPGGLEFKPGKDYYFISTSTDGDMHRRIGGRCQSHHTKVIFKVFGGDTEAQKT
TTPKTTTSTTPEPRKRAPPHIDWESPGNAWRNHHNDEPYGDHRQSSDVSPPQYGNRINQA
HSSTQRPVFVNSNNNGYGSSGTSGFTVNKPTKKTNDYDTRQNEVIKTEELTYNNNSSSIS
HCISHSMVFFSLIIAVLSQVLKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g15176.t1 | CDD | cd02675 | Ephrin_ectodomain | 3 | 110 | 2.05908E-47 |
| 8 | g15176.t1 | Gene3D | G3DSA:2.60.40.420 | - | 1 | 122 | 2.2E-37 |
| 13 | g15176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 114 | 147 | - |
| 14 | g15176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 115 | 133 | - |
| 2 | g15176.t1 | PANTHER | PTHR11304 | EPHRIN | 2 | 236 | 1.1E-56 |
| 3 | g15176.t1 | PANTHER | PTHR11304:SF29 | EPHRIN | 2 | 236 | 1.1E-56 |
| 4 | g15176.t1 | PRINTS | PR01347 | Ephrin signature | 21 | 36 | 2.3E-5 |
| 6 | g15176.t1 | PRINTS | PR01347 | Ephrin signature | 57 | 69 | 2.3E-5 |
| 5 | g15176.t1 | PRINTS | PR01347 | Ephrin signature | 70 | 81 | 2.3E-5 |
| 1 | g15176.t1 | Pfam | PF00812 | Ephrin | 3 | 110 | 4.8E-32 |
| 10 | g15176.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 242 | - |
| 11 | g15176.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 261 | - |
| 9 | g15176.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 262 | 263 | - |
| 15 | g15176.t1 | ProSiteProfiles | PS51551 | Ephrin receptor-binding (ephrin RBD) domain profile. | 1 | 110 | 36.991 |
| 7 | g15176.t1 | SUPERFAMILY | SSF49503 | Cupredoxins | 4 | 112 | 4.32E-26 |
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 |
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.
