General information for g13079.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative CREB-regulated transcription coactivator 3.
Parent gene
- The parent gene g13079 is located on chr_1: 27837201..27849433 (+ 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 | g13079 | g13079.t1 | TSS | g13079.t1 | 27836529 | 27836529 |
| chr_1 | g13079 | g13079.t1 | isoform | g13079.t1 | 27837201 | 27849433 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon1 | 27837201 | 27837314 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS1 | 27837201 | 27837314 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon2 | 27844762 | 27844879 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS2 | 27844762 | 27844879 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon3 | 27844940 | 27845097 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS3 | 27844940 | 27845097 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon4 | 27845150 | 27845421 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS4 | 27845150 | 27845421 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon5 | 27845494 | 27845665 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS5 | 27845494 | 27845665 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon6 | 27845798 | 27845959 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS6 | 27845798 | 27845959 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon7 | 27846065 | 27846292 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS7 | 27846065 | 27846292 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon8 | 27846369 | 27846517 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS8 | 27846369 | 27846517 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon9 | 27846601 | 27846679 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS9 | 27846601 | 27846679 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon10 | 27848627 | 27848683 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS10 | 27848627 | 27848683 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon11 | 27848775 | 27849216 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS11 | 27848775 | 27849216 |
| chr_1 | g13079 | g13079.t1 | exon | g13079.t1.exon12 | 27849282 | 27849433 |
| chr_1 | g13079 | g13079.t1 | cds | g13079.t1.CDS12 | 27849282 | 27849433 |
| chr_1 | g13079 | g13079.t1 | TTS | g13079.t1 | 27849886 | 27849886 |
Sequences
>g13079.t1 Gene=g13079 Length=2103
ATGGCAAATCCTCGAAAATTTTCGGAAAAAATAGCGCTATTAAATCAGAAGGAAGCAGAA
GGCAATGCTGAATTTGAGCGCATTATGCGTGAAGTGTCTGAAGTGTCAGCAAAGGGTGAC
GAATCGGGCACACCAACAACGACTTTAGCCGGACTCTTGACAACTGGATATATTAACGAT
TCGAATAAGAATGGCAATGCAGACAGCAAGTCGACAGCAAGGGAATCAAGAGGTCGGAGT
GTGGGTGGTGGTCCAATGCGTTCACGCCGAAATATTGACACATCACCGTATAGTAGTAAC
AACAATGCTTATCTAAGTCCTCCACAGGAATCGAGTTGGCGAAGGACGTCTTCTGATTCG
GCCATTCATCAGAGTCTAACGCAAGCTCAAGACATGCATAATAACGTTCACCAATCATTA
ATGTTAAGTCCGCGCGCTCATAAGCGATTGTCAAACAGTCAAAGCAACAGCATGAAGAAT
CTGCATCATCAGCAGCAACCAATTAATCAACAGCACAGTCTCAGTCAACAAAATATGCAA
CAAACGACTTTACTGGCACAGCAGGTGATGCATCAGCAGAGTATGCCACAGCAGCATTTA
GTGATGAACAACTTACAGCAAGACATGAAATCAAGATCGGTGTCTCGTCTACCAGGCATT
CATGTTTATCCAACTTCACAGAATGATGAGCTACTTCAAATACCTGTCGGCAATAGCACT
GGATCTCTGCCGGATCTGACGCTCGTACACTTTCAGCAGTCACCAATCTCAAATCCACTC
GATCCTCAAGAACAGCAACATTTAATAACGACAGTTACGAGTTCATTTACTACTAATCCA
TCATTCTCAATGGCAAGCACAAATCAAAGTACCACAAATCAATTACAAAATATGACACAA
CAGCAAATGTATACACAAATGGGAAATAATCTCGATCAATTCAGTCCGAAGCATTTTAAT
AATGATAGTAATAACGAAAAAGGTTCATCTAGTCAGAATATGTTACTTCAACAAGGAGGA
AACAACAATGCCAATTTTGCTCAGCAACAGCAATCAAATCCAATACCAATTGACACGAGT
CAACAGCAACGTCAACAACAGCAATCACCGCTACATCATCAAAGTTATCCAAGTCATATA
TCTGTAGATAAAATGATGAGTTACCGCAGTACCAATACGGCATCACCCGCCAATTTATCC
TTGTCACAGGGCAATTTATCAAAACAGAATAGTTATCGAAATCAGAATAGCCCGAATCAT
AGACCAAGTCCGGGATCGAGTCCGTTAGGCAATATACCGGGCCTCACAGCAAATTTTGAC
TCAAATTCCAGTGCACCTTGCAGTCCCTCACCACAAATGACATCAAATAATGGACAATTT
GATACTTATCCATCAGTTGATAGTTTTTATCTTAATCCAACAATTCAACAACATTTCGAA
CAGTTCTCATTAGTTGATAGCCCGCTGCCCGATTACATCACTTCTACAAATGATCAAAAC
TTTTCACAGATGAATGATAATTATAATGGAATCCTTAACGATAGCCCGAATCGGACCAAT
CAATCGCCAACGAATCGTTCACGACCGAGTTCACGAGCAAATCACAACACGACGACAAAT
AGCAATCAACAACAATCGCATACAAGTCAAAATAATGGTGGCGGATCGAGTCCACATAGT
CCACACAGTCCAATGGGCAGTGATACGATGTTGGCTGGAAATAATTATGACAACTTAAGG
AGTATATTAGGCTCATCGTCACCACTCGATGGCGCTTTATTGAATGGTATCAATAACAGC
AATAGTGGCGTTAATGATATTATGCTAGGTGCGGGCATTGGTAGTGACTCAAATTGCGCG
AAGCTCATACCAACAAGTATGTCTACATCATCTCCATCTCATCATCCACTCACTCAAACA
ACGACTGCCATACCAGAAATTATTTTCTCAGATTATTCATCGGGATCTGATTTCACACGC
GACCTATTGTCAGTTGACAATTTTTTAGAGCTTGGCATGAACACAACCGAACTTCAAATG
TTTGAAAACGCCAACATTATAGATCCAACGATAGAAGAGAATTTTAGACGCGATTTATAT
TAA
>g13079.t1 Gene=g13079 Length=700
MANPRKFSEKIALLNQKEAEGNAEFERIMREVSEVSAKGDESGTPTTTLAGLLTTGYIND
SNKNGNADSKSTARESRGRSVGGGPMRSRRNIDTSPYSSNNNAYLSPPQESSWRRTSSDS
AIHQSLTQAQDMHNNVHQSLMLSPRAHKRLSNSQSNSMKNLHHQQQPINQQHSLSQQNMQ
QTTLLAQQVMHQQSMPQQHLVMNNLQQDMKSRSVSRLPGIHVYPTSQNDELLQIPVGNST
GSLPDLTLVHFQQSPISNPLDPQEQQHLITTVTSSFTTNPSFSMASTNQSTTNQLQNMTQ
QQMYTQMGNNLDQFSPKHFNNDSNNEKGSSSQNMLLQQGGNNNANFAQQQQSNPIPIDTS
QQQRQQQQSPLHHQSYPSHISVDKMMSYRSTNTASPANLSLSQGNLSKQNSYRNQNSPNH
RPSPGSSPLGNIPGLTANFDSNSSAPCSPSPQMTSNNGQFDTYPSVDSFYLNPTIQQHFE
QFSLVDSPLPDYITSTNDQNFSQMNDNYNGILNDSPNRTNQSPTNRSRPSSRANHNTTTN
SNQQQSHTSQNNGGGSSPHSPHSPMGSDTMLAGNNYDNLRSILGSSSPLDGALLNGINNS
NSGVNDIMLGAGIGSDSNCAKLIPTSMSTSSPSHHPLTQTTTAIPEIIFSDYSSGSDFTR
DLLSVDNFLELGMNTTELQMFENANIIDPTIEENFRRDLY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13079.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 60 | 120 | - |
| 8 | g13079.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 91 | 120 | - |
| 7 | g13079.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 405 | 427 | - |
| 5 | g13079.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 513 | 564 | - |
| 3 | g13079.t1 | PANTHER | PTHR13589 | CREB-REGULATED TRANSCRIPTION COACTIVATOR | 1 | 699 | 1.3E-47 |
| 4 | g13079.t1 | PANTHER | PTHR13589:SF15 | CREB-REGULATED TRANSCRIPTION COACTIVATOR, ISOFORM B | 1 | 699 | 1.3E-47 |
| 2 | g13079.t1 | Pfam | PF12884 | Transducer of regulated CREB activity, N terminus | 3 | 41 | 4.2E-17 |
| 1 | g13079.t1 | Pfam | PF12885 | Transducer of regulated CREB activity middle domain | 115 | 279 | 1.6E-9 |
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:0008140 | cAMP response element binding protein binding | MF |
| GO:0005634 | nucleus | CC |
| GO:0051289 | protein homotetramerization | BP |
| GO:0032793 | positive regulation of CREB transcription factor activity | BP |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K15309 (CREB-regulated transcription coactivator 1)
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.
