Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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.t1 TSS g7210.t1 22106240 22106240
chr_2 g7210 g7210.t1 isoform g7210.t1 22106762 22107647
chr_2 g7210 g7210.t1 exon g7210.t1.exon1 22106762 22107320
chr_2 g7210 g7210.t1 cds g7210.t1.CDS1 22106762 22107320
chr_2 g7210 g7210.t1 exon g7210.t1.exon2 22107382 22107647
chr_2 g7210 g7210.t1 cds g7210.t1.CDS2 22107382 22107647
chr_2 g7210 g7210.t1 TTS g7210.t1 22107760 22107760

Sequences

>g7210.t1 Gene=g7210 Length=825
ATGGATGCAAATGAACAACAACAAAATCAACAGACTAATACAGCAGCAGCAGCCATCCAA
GTGATGCCAAATGGTCAGCAAATTTTACTTCAATCTCTACAACAAACATTAGGTGCGGCA
AATGGACAGCAGCAGCAAGCTATTCAAGTCGTGCCACTTCAACAAATGATCGGACAAGGA
GGAACAATTATTGTGCAACCACAAGTGCAACAACCTCAAATTGTACAATTACCTGATGGA
CAAACATTTATTTATCAACCAATGATACCTGACGCGACTCAACAACATCCGCAAATAGTT
AATATCAATGGAAACTTTTTTCAAATTCCTGCTCAACAGCCTGCCTCAGTAGCAGCAACA
AATTTACAAAGTTCACCTTCAGCATCTGCTCAACCAAGTCAACAAGTTATGTTGACCCAA
CCTACTACTACTACAGCTAGTACAACAAATGAAGCACAGAATGTTGTTTCAAACATTATT
AATACAGTAAATTCACCTTCAGAGACTACATCACCAGCACCTGTAGAATCAGAAGAGGAG
CCGCTATATGTTAATGCTAAACAATACAAAAGAATCTTGAAAAGACGAGCGGCAAGAGCT
AAACTTGAAGCACAGGGAAAAATTCCAAAGGAAAGACCAAAATATCTATATGAATCGCGG
CATCGACATGCGATGAATAGAATAAGAGGCGAAGGTGGCCGATTTGGTGATGCATCATCA
TCTTCTTCTACTAACTCTTCATTAAAGAAAAGTTCACAGCAGCATCAAAGTCAGCAATCT
AATAATCAGCATATACAACAGCATATAATTATGCATCATCATTAA

>g7210.t1 Gene=g7210 Length=274
MDANEQQQNQQTNTAAAAIQVMPNGQQILLQSLQQTLGAANGQQQQAIQVVPLQQMIGQG
GTIIVQPQVQQPQIVQLPDGQTFIYQPMIPDATQQHPQIVNINGNFFQIPAQQPASVAAT
NLQSSPSASAQPSQQVMLTQPTTTTASTTNEAQNVVSNIINTVNSPSETTSPAPVESEEE
PLYVNAKQYKRILKRRAARAKLEAQGKIPKERPKYLYESRHRHAMNRIRGEGGRFGDASS
SSSTNSSLKKSSQQHQSQQSNNQHIQQHIIMHHH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g7210.t1 MobiDBLite mobidb-lite consensus disorder prediction 230 265 -
9 g7210.t1 MobiDBLite mobidb-lite consensus disorder prediction 236 265 -
2 g7210.t1 PANTHER PTHR12632 TRANSCRIPTION FACTOR NF-Y ALPHA-RELATED 6 266 6.0E-40
3 g7210.t1 PANTHER PTHR12632:SF6 NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA 6 266 6.0E-40
4 g7210.t1 PRINTS PR00616 CCAAT-binding transcription factor subunit B signature 181 203 6.4E-22
5 g7210.t1 PRINTS PR00616 CCAAT-binding transcription factor subunit B signature 212 235 6.4E-22
1 g7210.t1 Pfam PF02045 CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B 180 235 3.4E-27
7 g7210.t1 ProSitePatterns PS00686 NF-YA/HAP2 subunit signature. 183 203 -
10 g7210.t1 ProSiteProfiles PS51152 NF-YA/HAP2 family profile. 178 238 35.234
6 g7210.t1 SMART SM00521 cbf3 177 238 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

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.

Raw TPM values