General information for g12075.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cryptochrome-1.
Parent gene
- The parent gene g12075 is located on chr_1: 20812382..20813354 (- 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 | g12075 | g12075.t8 | TTS | g12075.t8 | 20810964 | 20810964 |
| chr_1 | g12075 | g12075.t8 | isoform | g12075.t8 | 20811230 | 20812682 |
| chr_1 | g12075 | g12075.t8 | exon | g12075.t8.exon1 | 20811230 | 20811624 |
| chr_1 | g12075 | g12075.t8 | cds | g12075.t8.CDS1 | 20811230 | 20811624 |
| chr_1 | g12075 | g12075.t8 | exon | g12075.t8.exon2 | 20811680 | 20811765 |
| chr_1 | g12075 | g12075.t8 | cds | g12075.t8.CDS2 | 20811680 | 20811765 |
| chr_1 | g12075 | g12075.t8 | exon | g12075.t8.exon3 | 20811854 | 20812392 |
| chr_1 | g12075 | g12075.t8 | cds | g12075.t8.CDS3 | 20811854 | 20812392 |
| chr_1 | g12075 | g12075.t8 | exon | g12075.t8.exon4 | 20812453 | 20812601 |
| chr_1 | g12075 | g12075.t8 | cds | g12075.t8.CDS4 | 20812453 | 20812578 |
| chr_1 | g12075 | g12075.t8 | exon | g12075.t8.exon5 | 20812661 | 20812682 |
| chr_1 | g12075 | g12075.t8 | TSS | g12075.t8 | 20813433 | 20813433 |
Sequences
>g12075.t8 Gene=g12075 Length=1191
TCTGTAATCAATGCCAACGGGGGCTATCCTCCACTCACATATCAAATGTTTCTGCACACT
GTCAATGTATTAGGCAATCCTTCAAGACCTGTTCAAATGCCTTGCTTTTCTAATGTCGTT
TTTGGAACTATCCCACTTCATTTGCATAAACAACTTGGGTTGATGAACTCGATTCCATCA
CCTGAAGATTTTTCGCTATTTCCTTCAAAATCTAAAAAATTCTTAGTCTGGAAAGGAGGT
GAAAAAAGAGCATTAGAGCAATTAAAAATTAGACTACAAGTTGAACAAGAAGCATTTTTG
AATGGAACTTATTTGCCTAATCAAGGCAATCCTAAATTAACAGGTGACTCTACATCAATG
TCTGCTGCATTACGTTTTGGTTGCTTATCTGTGCGAAAGTTCTTTTATGATATTCATGAT
TTATTTGCTGAAGTAAAGCAAAAGACATTTAGTAATACTCCTGGCGGCCATCATATCACA
GGACAATTGATTTGGCGAGAATATTTTTATACAATGAGTGTAAGAAATCCATTTTATGCA
CAAATGGAAAACAATCCCATTTGTTTGAATATTAATTGGTCGCGACCAAATGATGAAGAC
ATCTTGAAATGGAAGGAAGGTAGGACAGGTTTTCCAATTATAGACGCAAGCATGCGACAA
ATTCTATCAGAAGGTTGGATTCATCATACATTGCGAAATATTACAGCAACCTTCTTAACC
CGTACAGGATTATGGTACAGTTGGGAGATTGGTTTACAGCATTTCTTAAAGTATCTTCTC
GATGCTGATTGGTCAGTGTGCAGCGGAAATTGGCTTTGGGTCTCATCAAGTGCATTTGAA
CGCTTATTGGATTCATCAAAGTTTAGTATCATAGCTATTGCTTATCGTCTTGACCCGGAA
GGCACATATATTCGTCGATACATTCGTGAATTACGTGATATACCTAATAGATATATTCAT
GAACCATGGAAAACACCATTAGAAATTCAAAAAAGATGTCGTTGCGTAATCGGTAAAGAT
TATCCCGAGCCAATGATTGATTTAAATCGAGCGATGCAAATTAATTCAAGTCGTATGAAA
GAAATTAGAAATTCATTGATTGAAGTCAAACAACCACATGTGCGACCATCAAATGAAGAT
GAAATTCGTACATTCTTTTGGATAGCTGACGATATTGCTGTCAAGTGTTAA
>g12075.t8 Gene=g12075 Length=381
MFLHTVNVLGNPSRPVQMPCFSNVVFGTIPLHLHKQLGLMNSIPSPEDFSLFPSKSKKFL
VWKGGEKRALEQLKIRLQVEQEAFLNGTYLPNQGNPKLTGDSTSMSAALRFGCLSVRKFF
YDIHDLFAEVKQKTFSNTPGGHHITGQLIWREYFYTMSVRNPFYAQMENNPICLNINWSR
PNDEDILKWKEGRTGFPIIDASMRQILSEGWIHHTLRNITATFLTRTGLWYSWEIGLQHF
LKYLLDADWSVCSGNWLWVSSSAFERLLDSSKFSIIAIAYRLDPEGTYIRRYIRELRDIP
NRYIHEPWKTPLEIQKRCRCVIGKDYPEPMIDLNRAMQINSSRMKEIRNSLIEVKQPHVR
PSNEDEIRTFFWIADDIAVKC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g12075.t8 | Gene3D | G3DSA:1.25.40.80 | - | 1 | 161 | 3.6E-24 |
| 10 | g12075.t8 | Gene3D | G3DSA:1.10.579.10 | DNA Cyclobutane Dipyrimidine Photolyase | 162 | 375 | 3.2E-79 |
| 2 | g12075.t8 | PANTHER | PTHR11455 | CRYPTOCHROME | 1 | 376 | 2.2E-155 |
| 3 | g12075.t8 | PANTHER | PTHR11455:SF17 | CRYPTOCHROME-1 | 1 | 376 | 2.2E-155 |
| 6 | g12075.t8 | PRINTS | PR00147 | DNA photolyase signature | 194 | 210 | 2.2E-7 |
| 5 | g12075.t8 | PRINTS | PR00147 | DNA photolyase signature | 214 | 232 | 2.2E-7 |
| 4 | g12075.t8 | PRINTS | PR00147 | DNA photolyase signature | 254 | 268 | 2.2E-7 |
| 1 | g12075.t8 | Pfam | PF03441 | FAD binding domain of DNA photolyase | 146 | 345 | 7.4E-65 |
| 8 | g12075.t8 | ProSitePatterns | PS00394 | DNA photolyases class 1 signature 1. | 194 | 206 | - |
| 7 | g12075.t8 | SUPERFAMILY | SSF48173 | Cryptochrome/photolyase FAD-binding domain | 50 | 349 | 8.24E-82 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K01669 (deoxyribodipyrimidine photo-lyase)
Pathway
This gene does not belong to any 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.
