General information for g11178.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Hairy/enhancer-of-split related with YRPW motif protein.
Parent gene
- The parent gene g11178 is located on chr_1: 14448775..14451701 (- 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_1 | g11178 | g11178.t1 | isoform | g11178.t1 | 14448775 | 14451701 |
| chr_1 | g11178 | g11178.t1 | exon | g11178.t1.exon1 | 14448775 | 14449532 |
| chr_1 | g11178 | g11178.t1 | cds | g11178.t1.CDS1 | 14448775 | 14449532 |
| chr_1 | g11178 | g11178.t1 | exon | g11178.t1.exon2 | 14451155 | 14451369 |
| chr_1 | g11178 | g11178.t1 | cds | g11178.t1.CDS2 | 14451155 | 14451369 |
| chr_1 | g11178 | g11178.t1 | exon | g11178.t1.exon3 | 14451439 | 14451701 |
| chr_1 | g11178 | g11178.t1 | cds | g11178.t1.CDS3 | 14451439 | 14451701 |
| chr_1 | g11178 | g11178.t1 | TSS | g11178.t1 | NA | NA |
| chr_1 | g11178 | g11178.t1 | TTS | g11178.t1 | NA | NA |
Sequences
>g11178.t1 Gene=g11178 Length=1236
ATGGAGCATCATCATAGTAGCAGTAGCATGCATCATTTAGGAGGCGTACAAAATCCTCAA
GGTCATCATCATCATCTTCATTGGAATTATTCGTCACCTTCGACAAATATATCAGCAACA
GCACCACTTACGTCTACACCTATCGTCAATTCATCATCAAACAGTAATCAAACATGGACA
CCGCCTTCAACAAGAGGTCTCAAAAGAGCAATGTCTGAAAGTGATTGCGATGATATTTAT
TCTGAAGAATCCTCAAAAGAACATGCATCATCTATTGAAAATGACAGTTGTCAATTGATG
AGTCGTAAAAAACGTCGAGGTGTGATTGAAAAGAAACGTAGAGATAGAATTAATTCATCA
TTATCAGAACTTAAACGACTTGTGCCATCAGCTTTCGAAAAGCAAGGCTCAGCAAAGTTA
GAAAAGGCAGAGATTTTACAACTAACAGTTGATCATCTAAAAATGCTTCATGCAAAAGGA
ATCGATTCAATGGCATTCGACCCTCAACGTTTTGCTATGGATTATCATATAATTGGATTT
CGCGAATGTGCATCTGAAGTTGCACGTTATTTAGTAACAATTGAAGGAATGGATATTCAA
GATCCACTTCGATTGAGACTTATGTCACATTTACAATGTTTTGTTGCACAACGTGAATTA
AGTGCTAAATCATCAACTGCAACAATGTCAGGTACAAGTTGGAATACATATCAACCAAAT
TATCCACCGACACAAAGCTATCAAACATATCCAACGACACCTGTCACTCCAACAACGCAT
CATCATCAAAACAGTAGTCAACATCATAACAGCTTTAATTCATCATCATCCTACATGCCA
TCATCGTCATATCTTGGTTCAAGTCATAGCATATTGCCTCAATCGCCTGAATATTCATCA
TCATCGGGCTATGGCTCAACTCAAACTTCCAATAACACATCGTCAAATACAAATGTCAAT
ACATCATCAAACAGTGCTAGCAATAATTCTTCAACTTCACCAGCACCACATACAGTTACT
TCCACGAATGATTCAACACAGGAAAATCAACAACAGCAGCCTATTTATACAGATTTATCA
AACTCTAATGATCGATTGCAATTGAGTTTGAATGGAAATTATCATTATGGAAATGCAAAT
CAATTATATGCTAATTCCGGAAATAATAATGGCTATAACAACAATAATAATAACTCGAAG
CCATATAGACCATGGCATCCTGAAATGGCTTATTAA
>g11178.t1 Gene=g11178 Length=411
MEHHHSSSSMHHLGGVQNPQGHHHHLHWNYSSPSTNISATAPLTSTPIVNSSSNSNQTWT
PPSTRGLKRAMSESDCDDIYSEESSKEHASSIENDSCQLMSRKKRRGVIEKKRRDRINSS
LSELKRLVPSAFEKQGSAKLEKAEILQLTVDHLKMLHAKGIDSMAFDPQRFAMDYHIIGF
RECASEVARYLVTIEGMDIQDPLRLRLMSHLQCFVAQRELSAKSSTATMSGTSWNTYQPN
YPPTQSYQTYPTTPVTPTTHHHQNSSQHHNSFNSSSSYMPSSSYLGSSHSILPQSPEYSS
SSGYGSTQTSNNTSSNTNVNTSSNSASNNSSTSPAPHTVTSTNDSTQENQQQQPIYTDLS
NSNDRLQLSLNGNYHYGNANQLYANSGNNNGYNNNNNNSKPYRPWHPEMAY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11178.t1 | CDD | cd19748 | bHLH-O_HEY1 | 94 | 162 | 1.0022E-42 |
| 7 | g11178.t1 | Gene3D | G3DSA:4.10.280.10 | HLH | 97 | 159 | 1.4E-21 |
| 11 | g11178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 47 | 97 | - |
| 12 | g11178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 47 | 67 | - |
| 14 | g11178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 70 | 90 | - |
| 13 | g11178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 254 | 351 | - |
| 3 | g11178.t1 | PANTHER | PTHR10985:SF126 | HAIRY/ENHANCER-OF-SPLIT RELATED WITH YRPW MOTIF PROTEIN | 70 | 411 | 3.3E-113 |
| 4 | g11178.t1 | PANTHER | PTHR10985 | BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED | 70 | 411 | 3.3E-113 |
| 2 | g11178.t1 | Pfam | PF00010 | Helix-loop-helix DNA-binding domain | 102 | 157 | 4.7E-16 |
| 1 | g11178.t1 | Pfam | PF07527 | Hairy Orange | 179 | 212 | 2.0E-10 |
| 15 | g11178.t1 | ProSiteProfiles | PS50888 | Myc-type, basic helix-loop-helix (bHLH) domain profile. | 101 | 156 | 16.666 |
| 16 | g11178.t1 | ProSiteProfiles | PS51054 | Orange domain profile. | 175 | 211 | 12.026 |
| 9 | g11178.t1 | SMART | SM00353 | finulus | 107 | 162 | 7.4E-13 |
| 10 | g11178.t1 | SMART | SM00511 | orange_5 | 173 | 220 | 2.5E-15 |
| 6 | g11178.t1 | SUPERFAMILY | SSF47459 | HLH, helix-loop-helix DNA-binding domain | 102 | 157 | 2.36E-13 |
| 5 | g11178.t1 | SUPERFAMILY | SSF158457 | Orange domain-like | 165 | 217 | 4.71E-16 |
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:0003677 | DNA binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0046983 | protein dimerization activity | MF |
KEGG
Orthology
- This transcript has been annotated with K09091 (hairy and enhancer of split related with YRPW motif)
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. There were no conditions that were differentially expressed