General information for g10054.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transcription factor BTF3-like protein.
Parent gene
- The parent gene g10054 is located on chr_1: 7106652..7107369 (+ 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 | g10054 | g10054.t12 | TSS | g10054.t12 | 7105774 | 7105774 |
| chr_1 | g10054 | g10054.t12 | isoform | g10054.t12 | 7105843 | 7107369 |
| chr_1 | g10054 | g10054.t12 | exon | g10054.t12.exon1 | 7105843 | 7105906 |
| chr_1 | g10054 | g10054.t12 | cds | g10054.t12.CDS1 | 7105843 | 7105906 |
| chr_1 | g10054 | g10054.t12 | exon | g10054.t12.exon2 | 7106065 | 7106288 |
| chr_1 | g10054 | g10054.t12 | cds | g10054.t12.CDS2 | 7106065 | 7106288 |
| chr_1 | g10054 | g10054.t12 | exon | g10054.t12.exon3 | 7106633 | 7106740 |
| chr_1 | g10054 | g10054.t12 | cds | g10054.t12.CDS3 | 7106633 | 7106740 |
| chr_1 | g10054 | g10054.t12 | exon | g10054.t12.exon4 | 7106880 | 7107369 |
| chr_1 | g10054 | g10054.t12 | cds | g10054.t12.CDS4 | 7106880 | 7107173 |
| chr_1 | g10054 | g10054.t12 | TTS | g10054.t12 | 7107366 | 7107366 |
Sequences
>g10054.t12 Gene=g10054 Length=886
ATGAATCCTGAAAAGTTAAAAAAACTGCAGGCACAAGCTGCCCAAGTTCGAATTGGTGGA
AAAGGTACCCCCCGTCGTAAGAAGAAGATAGTGCATCAAACTGCAGCAACTGACGATAAG
AAATTACAATCAACATTGAAGAAATTATCTGTTAATAATATACCTGGTATCGAAGAGGTT
AATTTGATTAAAAATGACGGAACTGTCATTCATTTCAATAATCCAAAAACGCAGGCATCG
CTTGCTAGCAATGTTTTTGCGATCACTGGACATGGAGAACAAAAACAGATTGCTGAATTG
TTGCCAGGAATTCTCACACAATTGGGCACTGAAGGATTGTCACAATTGAAAAGATTAGCC
AATAATGTTGGAATTGGAAGCAAAATTTTAAGCTCACGCAAATCGCTTCGAGTACGATTC
AAGAAGCTGCCGAAAAGACTGCAGCAGCTGTACCACCAACTACTACTACTACTGAAAAGC
CTGCTGAAGAAAAGAAAGAACCGAAAAAAGAAACGACACCAAAAAAATCAAACGAAAAGG
GTGGAAAAAAGCAGCAGTCAAAGGATAAAAAAGCTTAAATTAACTTCATCGAGGTCGTCG
TTTGCTAATTTAAAACTATCTTCTACTTCATTAAAAAAAGAACAACTTTTTCTTGTCAAA
AGTTTTTCGTACATACTACTACTACTCTAACGCAGAGACATAGTTTGTTGCTTTATTAAG
AAAAAAACTAACAAAGAGAGAGAGAAAATAAAAATTCATCGGAAATCAAATTTACATTAT
TTTGAGGGTATGAATGATTGCAACTTTTTTCAAATACTGTATTGATTGTAACAAAAAAAA
ATAAATAAGTCAGAACAAGTCCAAAAATATGGATGAAAACAATAAA
>g10054.t12 Gene=g10054 Length=229
MNPEKLKKLQAQAAQVRIGGKGTPRRKKKIVHQTAATDDKKLQSTLKKLSVNNIPGIEEV
NLIKNDGTVIHFNNPKTQASLASNVFAITGHGEQKQIAELLPGILTQLGTEGLSQLKRLA
NNVGIGSKILSSRKSLRVRFKKLPKRLQQLYHQLLLLLKSLLKKRKNRKKKRHQKNQTKR
VEKSSSQRIKKLKLTSSRSSFANLKLSSTSLKKEQLFLVKSFSYILLLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10054.t12 | Coils | Coil | Coil | 229 | 229 | - |
| 5 | g10054.t12 | Gene3D | G3DSA:2.20.70.30 | - | 51 | 108 | 4.4E-31 |
| 4 | g10054.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 165 | 188 | - |
| 2 | g10054.t12 | PANTHER | PTHR10351 | TRANSCRIPTION FACTOR BTF3 FAMILY MEMBER | 1 | 185 | 1.5E-57 |
| 1 | g10054.t12 | Pfam | PF01849 | NAC domain | 39 | 95 | 7.6E-22 |
| 7 | g10054.t12 | ProSiteProfiles | PS51151 | NAC A/B domain profile. | 36 | 101 | 17.213 |
| 3 | g10054.t12 | SMART | SM01407 | NAC_2 | 39 | 95 | 1.6E-23 |
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 K01527 (nascent polypeptide-associated complex subunit beta)
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.
