General information for g7210.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g7210 is located on chr_2: 22106762..22107647 (+ 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 | g7210 | g7210.t3 | TSS | g7210.t3 | 22106240 | 22106240 |
| chr_2 | g7210 | g7210.t3 | isoform | g7210.t3 | 22106244 | 22107647 |
| chr_2 | g7210 | g7210.t3 | exon | g7210.t3.exon1 | 22106244 | 22106405 |
| chr_2 | g7210 | g7210.t3 | exon | g7210.t3.exon2 | 22106634 | 22106740 |
| chr_2 | g7210 | g7210.t3 | exon | g7210.t3.exon3 | 22106795 | 22107320 |
| chr_2 | g7210 | g7210.t3 | cds | g7210.t3.CDS1 | 22106825 | 22107320 |
| chr_2 | g7210 | g7210.t3 | exon | g7210.t3.exon4 | 22107382 | 22107647 |
| chr_2 | g7210 | g7210.t3 | cds | g7210.t3.CDS2 | 22107382 | 22107647 |
| chr_2 | g7210 | g7210.t3 | TTS | g7210.t3 | 22108657 | 22108657 |
Sequences
>g7210.t3 Gene=g7210 Length=1061
TCTGTTAATTTTTTCCTTAGCCAATCGACATTACATTTTTCAACCAATAGATTTTCTGGA
CAAATCACCATCAATATCAAATCAAGGATCAAAATAAAGTTAAATCTTAAGAACTGATTG
CCTAAAATGTCTCGACAAAGCCGTTTTGAAGTGAAAAAAGTGCTTTTAGGGGTTTTAATA
TAAATCTTACATTTTCGAAACAAATAACAAATGAATGAGCGTGATTGAGCTATAATAAAT
AATAATACAGGACAAATTAAAATATCAAAACTAATACAGCAGCAGCAGCCATCCAAGTGA
TGCCAAATGGTCAGCAAATTTTACTTCAATCTCTACAACAAACATTAGGTGCGGCAAATG
GACAGCAGCAGCAAGCTATTCAAGTCGTGCCACTTCAACAAATGATCGGACAAGGAGGAA
CAATTATTGTGCAACCACAAGTGCAACAACCTCAAATTGTACAATTACCTGATGGACAAA
CATTTATTTATCAACCAATGATACCTGACGCGACTCAACAACATCCGCAAATAGTTAATA
TCAATGGAAACTTTTTTCAAATTCCTGCTCAACAGCCTGCCTCAGTAGCAGCAACAAATT
TACAAAGTTCACCTTCAGCATCTGCTCAACCAAGTCAACAAGTTATGTTGACCCAACCTA
CTACTACTACAGCTAGTACAACAAATGAAGCACAGAATGTTGTTTCAAACATTATTAATA
CAGTAAATTCACCTTCAGAGACTACATCACCAGCACCTGTAGAATCAGAAGAGGAGCCGC
TATATGTTAATGCTAAACAATACAAAAGAATCTTGAAAAGACGAGCGGCAAGAGCTAAAC
TTGAAGCACAGGGAAAAATTCCAAAGGAAAGACCAAAATATCTATATGAATCGCGGCATC
GACATGCGATGAATAGAATAAGAGGCGAAGGTGGCCGATTTGGTGATGCATCATCATCTT
CTTCTACTAACTCTTCATTAAAGAAAAGTTCACAGCAGCATCAAAGTCAGCAATCTAATA
ATCAGCATATACAACAGCATATAATTATGCATCATCATTAA
>g7210.t3 Gene=g7210 Length=253
MPNGQQILLQSLQQTLGAANGQQQQAIQVVPLQQMIGQGGTIIVQPQVQQPQIVQLPDGQ
TFIYQPMIPDATQQHPQIVNINGNFFQIPAQQPASVAATNLQSSPSASAQPSQQVMLTQP
TTTTASTTNEAQNVVSNIINTVNSPSETTSPAPVESEEEPLYVNAKQYKRILKRRAARAK
LEAQGKIPKERPKYLYESRHRHAMNRIRGEGGRFGDASSSSSTNSSLKKSSQQHQSQQSN
NQHIQQHIIMHHH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7210.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 209 | 244 | - |
| 9 | g7210.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 215 | 244 | - |
| 2 | g7210.t3 | PANTHER | PTHR12632 | TRANSCRIPTION FACTOR NF-Y ALPHA-RELATED | 20 | 245 | 3.7E-43 |
| 3 | g7210.t3 | PANTHER | PTHR12632:SF6 | NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA | 20 | 245 | 3.7E-43 |
| 5 | g7210.t3 | PRINTS | PR00616 | CCAAT-binding transcription factor subunit B signature | 160 | 182 | 5.7E-22 |
| 4 | g7210.t3 | PRINTS | PR00616 | CCAAT-binding transcription factor subunit B signature | 191 | 214 | 5.7E-22 |
| 1 | g7210.t3 | Pfam | PF02045 | CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B | 159 | 214 | 3.0E-27 |
| 7 | g7210.t3 | ProSitePatterns | PS00686 | NF-YA/HAP2 subunit signature. | 162 | 182 | - |
| 10 | g7210.t3 | ProSiteProfiles | PS51152 | NF-YA/HAP2 family profile. | 157 | 217 | 35.234 |
| 6 | g7210.t3 | SMART | SM00521 | cbf3 | 156 | 217 | 2.0E-33 |
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:0016602 | CCAAT-binding factor complex | CC |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K08064 (nuclear transcription factor Y, alpha)
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.
