General information for g7121.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Circadian locomoter output cycles protein kaput.
Parent gene
- The parent gene g7121 is located on chr_2: 21342769..21345474 (+ 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 | g7121 | g7121.t3 | isoform | g7121.t3 | 21339919 | 21341533 |
| chr_2 | g7121 | g7121.t3 | exon | g7121.t3.exon1 | 21339919 | 21340105 |
| chr_2 | g7121 | g7121.t3 | cds | g7121.t3.CDS1 | 21339919 | 21340105 |
| chr_2 | g7121 | g7121.t3 | exon | g7121.t3.exon2 | 21340167 | 21340348 |
| chr_2 | g7121 | g7121.t3 | cds | g7121.t3.CDS2 | 21340167 | 21340348 |
| chr_2 | g7121 | g7121.t3 | exon | g7121.t3.exon3 | 21340421 | 21340637 |
| chr_2 | g7121 | g7121.t3 | cds | g7121.t3.CDS3 | 21340421 | 21340637 |
| chr_2 | g7121 | g7121.t3 | exon | g7121.t3.exon4 | 21340701 | 21341006 |
| chr_2 | g7121 | g7121.t3 | cds | g7121.t3.CDS4 | 21340701 | 21341006 |
| chr_2 | g7121 | g7121.t3 | exon | g7121.t3.exon5 | 21341079 | 21341533 |
| chr_2 | g7121 | g7121.t3 | cds | g7121.t3.CDS5 | 21341079 | 21341533 |
| chr_2 | g7121 | g7121.t3 | TSS | g7121.t3 | NA | NA |
| chr_2 | g7121 | g7121.t3 | TTS | g7121.t3 | NA | NA |
Sequences
>g7121.t3 Gene=g7121 Length=1347
ATGATGGACGACGATGATGACAAGGATGACAGCAAGAGGAAATCACGTAATCTTAGTGAA
AAGAAAAGGCGCGATCAATTTAATTTATTAGTTAATGAACTAAGTTCAATGGTATCAACA
AATAGTAGAAAAATGGATAAATCAACAGTCTTAAAAACAACTATTGCATTTTTGAAAAAT
CATAATGAAATCTCAGTGAGATCTCGAGCGCATGAAATTCAGGAAAACTGGAAGCCATCA
TTTCTGCCGAATGAAGAATTTTCGCATCTGATACTCGAAGCTTTGGATGGCTTCATAATT
GTGTTCTCATCCACTGGAAAAATTTATTATACATCTGAAAGCATTACATCACTTCTCTCC
CATTTACCCAGTGATCTACTGAATATGACAATTTATGATTTGGTTTATGAGGAGGAGCAG
CAAGACATATATAATTTGCTTTTAAATCCACCTAAATCAGTTGATCCAATGCAGAGTGGG
ATTAATTCAGAGAATCAGGTTTCATTTACTTGTCACGTTAAGCGTGGATCTCTCGATAAC
TCATCTCCATTATCATATGAATATGTACAGTTTAATGGATATTTTAGAGATAACATAGAT
GTAGATAGTATGATGCCATCGAGATATAGTGGTTATTCTGGTGAAGCCGATACGAGACTA
ATATTTGTTGGAACTGGTCGTTTACTCACACCCCAACTCATAAGAGAAATGTCAATAGTT
GACACAAAAAGCGAATTCACATCTCGACATAGTCTTGAATGGAAATTTCTTTTTCTAGAT
CATCGAGCTTCACAAATTATTGGTTATTTACCTTTTGAAGTACTTGGAACATCAGGTTAT
GACTATTACCATTTTGATGACCTTGAACGAGTTGTCACGTGTCATGAGGCATTAATGCAA
AAAGGAGAAGGGACATCATGTTATTATCGATTTTTAACGAAAGGACAACAGTGGATATGG
TTGCAAACACGTTTTTATATAACTTATCATCAATGGAATTCAAAACCAGAATTTGTTGTG
TGCACACATAGAGTTGTAAGCTATGCTGATGTCATGAAACAAATGAGAAAAAGTGGAAAT
GGAACTGCTTTAAAGGACATTGATGATAATGATAGTGCAACTGAGGATCGTGGTAAAGCG
CCAACTTCAACTTCAATGATGGCCACTTCACCTTGGAGTTCAAAAAGTTCAAGAGCATCT
AAATCAATTGCACATACTCAAGAATCTCCTAATATTAAAATGAAACGGTATCAATCATAT
CGACCAGATTCTGATTCGACTTCAATGTCTGCTGATTCACCACTCAGTCATCATTCAATT
TTGACACAACATAGTTCAGTTAGTCAG
>g7121.t3 Gene=g7121 Length=449
MMDDDDDKDDSKRKSRNLSEKKRRDQFNLLVNELSSMVSTNSRKMDKSTVLKTTIAFLKN
HNEISVRSRAHEIQENWKPSFLPNEEFSHLILEALDGFIIVFSSTGKIYYTSESITSLLS
HLPSDLLNMTIYDLVYEEEQQDIYNLLLNPPKSVDPMQSGINSENQVSFTCHVKRGSLDN
SSPLSYEYVQFNGYFRDNIDVDSMMPSRYSGYSGEADTRLIFVGTGRLLTPQLIREMSIV
DTKSEFTSRHSLEWKFLFLDHRASQIIGYLPFEVLGTSGYDYYHFDDLERVVTCHEALMQ
KGEGTSCYYRFLTKGQQWIWLQTRFYITYHQWNSKPEFVVCTHRVVSYADVMKQMRKSGN
GTALKDIDDNDSATEDRGKAPTSTSMMATSPWSSKSSRASKSIAHTQESPNIKMKRYQSY
RPDSDSTSMSADSPLSHHSILTQHSSVSQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g7121.t3 | CDD | cd00130 | PAS | 95 | 149 | 5.67039E-6 |
| 16 | g7121.t3 | CDD | cd00130 | PAS | 244 | 345 | 6.75739E-18 |
| 12 | g7121.t3 | Gene3D | G3DSA:4.10.280.10 | HLH | 19 | 95 | 3.3E-24 |
| 14 | g7121.t3 | Gene3D | G3DSA:3.30.450.20 | - | 96 | 233 | 2.0E-34 |
| 13 | g7121.t3 | Gene3D | G3DSA:3.30.450.20 | - | 235 | 353 | 4.9E-39 |
| 23 | g7121.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 21 | g7121.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 362 | 376 | - |
| 24 | g7121.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 362 | 449 | - |
| 22 | g7121.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 377 | 414 | - |
| 25 | g7121.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 421 | 449 | - |
| 4 | g7121.t3 | PANTHER | PTHR46055 | CIRCADIAN LOCOMOTER OUTPUT CYCLES PROTEIN KAPUT | 1 | 431 | 2.7E-229 |
| 5 | g7121.t3 | PANTHER | PTHR46055:SF3 | CIRCADIAN LOCOMOTER OUTPUT CYCLES PROTEIN KAPUT | 1 | 431 | 2.7E-229 |
| 6 | g7121.t3 | PRINTS | PR00785 | Nuclear translocator signature | 26 | 41 | 1.3E-15 |
| 8 | g7121.t3 | PRINTS | PR00785 | Nuclear translocator signature | 77 | 100 | 1.3E-15 |
| 7 | g7121.t3 | PRINTS | PR00785 | Nuclear translocator signature | 245 | 262 | 1.3E-15 |
| 2 | g7121.t3 | Pfam | PF00010 | Helix-loop-helix DNA-binding domain | 12 | 60 | 2.0E-7 |
| 1 | g7121.t3 | Pfam | PF00989 | PAS fold | 90 | 146 | 6.5E-6 |
| 3 | g7121.t3 | Pfam | PF14598 | PAS domain | 244 | 347 | 1.2E-19 |
| 26 | g7121.t3 | ProSiteProfiles | PS50888 | Myc-type, basic helix-loop-helix (bHLH) domain profile. | 11 | 61 | 13.548 |
| 27 | g7121.t3 | ProSiteProfiles | PS50112 | PAS repeat profile. | 84 | 147 | 12.164 |
| 28 | g7121.t3 | ProSiteProfiles | PS50112 | PAS repeat profile. | 255 | 302 | 9.749 |
| 17 | g7121.t3 | SMART | SM00353 | finulus | 17 | 67 | 2.1E-6 |
| 18 | g7121.t3 | SMART | SM00091 | pas_2 | 86 | 152 | 1.1E-6 |
| 19 | g7121.t3 | SMART | SM00091 | pas_2 | 234 | 300 | 6.4E-8 |
| 20 | g7121.t3 | SMART | SM00086 | pac_2 | 306 | 349 | 8.9E-7 |
| 11 | g7121.t3 | SUPERFAMILY | SSF47459 | HLH, helix-loop-helix DNA-binding domain | 8 | 69 | 9.95E-12 |
| 10 | g7121.t3 | SUPERFAMILY | SSF55785 | PYP-like sensor domain (PAS domain) | 95 | 142 | 2.09E-7 |
| 9 | g7121.t3 | SUPERFAMILY | SSF55785 | PYP-like sensor domain (PAS domain) | 245 | 346 | 1.77E-24 |
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:0005634 | nucleus | CC |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
| GO:0005667 | transcription regulator complex | CC |
| GO:0005737 | cytoplasm | CC |
| GO:0003700 | DNA-binding transcription factor activity | MF |
| GO:0046983 | protein dimerization activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02223 (circadian locomoter output cycles kaput protein)
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. There were no conditions that were differentially expressed