General information for g5515.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cyclic AMP response element-binding protein B.
Parent gene
- The parent gene g5515 is located on chr_2: 10028251..10029373 (- 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 | g5515 | g5515.t3 | TTS | g5515.t3 | 10027731 | 10027731 |
| chr_2 | g5515 | g5515.t3 | isoform | g5515.t3 | 10027737 | 10029139 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon1 | 10027737 | 10027819 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon2 | 10027907 | 10028194 |
| chr_2 | g5515 | g5515.t3 | cds | g5515.t3.CDS1 | 10027974 | 10028194 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon3 | 10028251 | 10028364 |
| chr_2 | g5515 | g5515.t3 | cds | g5515.t3.CDS2 | 10028251 | 10028364 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon4 | 10028429 | 10028579 |
| chr_2 | g5515 | g5515.t3 | cds | g5515.t3.CDS3 | 10028429 | 10028579 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon5 | 10028655 | 10028792 |
| chr_2 | g5515 | g5515.t3 | cds | g5515.t3.CDS4 | 10028655 | 10028792 |
| chr_2 | g5515 | g5515.t3 | exon | g5515.t3.exon6 | 10028902 | 10029139 |
| chr_2 | g5515 | g5515.t3 | cds | g5515.t3.CDS5 | 10028902 | 10029024 |
| chr_2 | g5515 | g5515.t3 | TSS | g5515.t3 | 10029368 | 10029368 |
Sequences
>g5515.t3 Gene=g5515 Length=1012
CACGAATAATTGTCAACATACCAATAGAAAGAGAGAGCAAACTGTATCGTAGTGAGGAAA
CAGCCGCATAAAAGCTTAGAATCAAATAAGGATCATTTGATTTGATTTTATAGTGATGGA
TCCTATTGAAGAAAACTCTTCAAATATTGAAACTTCTGTTTCATCTGCAACATCAGGAAC
CACAAATATTGTCCATCATCTAATTCCGCCATCACAAGTGAATCCTTCAGCACATCAAGC
CCACGTTCAATCTTCATCTGTAATACAACCAAATCAACAATCAGTTATAACCGCTACTGG
AGTGCAACTTGTAAAAAGTGTTTTGCTGGTGAATAGTAAACCAAATTCTGTCATTCATAC
GACTCAAGCTATTCAAATAAAACCTGAACCAAATATTGGTCATATGATAACTTCAGATGA
TTCTGACGACTATTCTGATGATGATTCTCCAAAAAAGCGTAGAGATTTATTGACGAGACG
TCCTTCATATCGAAAAATTTTAAATGACCTCGGAGGAGGTGAAATGGGGGGAACAATATT
GACACAAGCTGGAAATCCAAATGATCATGCGATTCATGGTGGAAGTACGATTGTACAATA
TAATAATCAGGATGGATCAGGTTTGGTGTCATATGTCCCTGTAAATTTGGTTGGAAATAA
TGTGATAGCAGAAGACCAGTCCAGAAAACGTGAGATGAGGTTACTTAAAAATAGAGAAGC
AGCTCGAGAATGTCGTCGAAAAAAGAAGGAATACATAAAGTGCCTGGAAAATAGAGTAGC
AGTACTTGAAAATCAAAATAAGGCATTAATCGAAGAGTTAAAGAGTTTAAAAGAGTTATA
TTGTCAACAGAAGAATGATTGAAGCAATTAGGACGATTAAAAAAAACTTTTAAAAAGAGA
GAGAAAATTGTAAGAAATTATTTTTCTATCATCTTGTACCTAATTCTGTGTAATTTCTAC
TTATGTAAAAAAAAAATACTATTGTTTAATAAAATATAACCATTTATCTATA
>g5515.t3 Gene=g5515 Length=248
MDPIEENSSNIETSVSSATSGTTNIVHHLIPPSQVNPSAHQAHVQSSSVIQPNQQSVITA
TGVQLVKSVLLVNSKPNSVIHTTQAIQIKPEPNIGHMITSDDSDDYSDDDSPKKRRDLLT
RRPSYRKILNDLGGGEMGGTILTQAGNPNDHAIHGGSTIVQYNNQDGSGLVSYVPVNLVG
NNVIAEDQSRKREMRLLKNREAARECRRKKKEYIKCLENRVAVLENQNKALIEELKSLKE
LYCQQKND
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5515.t3 | CDD | cd14690 | bZIP_CREB1 | 191 | 244 | 1.39263E-31 |
| 11 | g5515.t3 | Coils | Coil | Coil | 207 | 241 | - |
| 10 | g5515.t3 | Gene3D | G3DSA:1.20.5.170 | - | 191 | 245 | 8.2E-21 |
| 15 | g5515.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 4 | g5515.t3 | PANTHER | PTHR45879:SF3 | CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B | 12 | 139 | 3.4E-60 |
| 6 | g5515.t3 | PANTHER | PTHR45879 | CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B | 12 | 139 | 3.4E-60 |
| 3 | g5515.t3 | PANTHER | PTHR45879:SF3 | CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B | 170 | 246 | 3.4E-60 |
| 5 | g5515.t3 | PANTHER | PTHR45879 | CYCLIC AMP RESPONSE ELEMENT-BINDING PROTEIN B | 170 | 246 | 3.4E-60 |
| 7 | g5515.t3 | PRINTS | PR00041 | cAMP response element binding (CREB) protein signature | 109 | 131 | 2.5E-6 |
| 8 | g5515.t3 | PRINTS | PR00041 | cAMP response element binding (CREB) protein signature | 206 | 222 | 2.5E-6 |
| 2 | g5515.t3 | Pfam | PF02173 | pKID domain | 108 | 136 | 5.4E-15 |
| 1 | g5515.t3 | Pfam | PF00170 | bZIP transcription factor | 189 | 246 | 4.3E-18 |
| 14 | g5515.t3 | ProSitePatterns | PS00036 | Basic-leucine zipper (bZIP) domain signature. | 195 | 209 | - |
| 17 | g5515.t3 | ProSiteProfiles | PS50953 | KID domain profile. | 92 | 151 | 12.714 |
| 16 | g5515.t3 | ProSiteProfiles | PS50217 | Basic-leucine zipper (bZIP) domain profile. | 189 | 240 | 11.519 |
| 13 | g5515.t3 | SMART | SM00338 | brlzneu | 185 | 248 | 9.7E-8 |
| 9 | g5515.t3 | SUPERFAMILY | SSF57959 | Leucine zipper domain | 191 | 242 | 2.74E-12 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5515/g5515.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5515.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005634 | nucleus | CC |
| GO:0003677 | DNA binding | MF |
| GO:0005515 | protein binding | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0003700 | DNA-binding transcription factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05870 (cyclic AMP-responsive element-binding protein 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.
