General information for g12506.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Balbiani ring protein 3.
Parent gene
- The parent gene g12506 is located on chr_1: 24093277..24094576 (- 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 | g12506 | g12506.t5 | isoform | g12506.t5 | 24091912 | 24094576 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon1 | 24091912 | 24092421 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS1 | 24091913 | 24092421 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon2 | 24092717 | 24092860 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS2 | 24092717 | 24092860 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon3 | 24093276 | 24093337 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS3 | 24093276 | 24093337 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon4 | 24093409 | 24093457 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS4 | 24093409 | 24093457 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon5 | 24093695 | 24093844 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS5 | 24093695 | 24093844 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon6 | 24093970 | 24094055 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS6 | 24093970 | 24094055 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon7 | 24094112 | 24094247 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS7 | 24094112 | 24094247 |
| chr_1 | g12506 | g12506.t5 | exon | g12506.t5.exon8 | 24094305 | 24094576 |
| chr_1 | g12506 | g12506.t5 | cds | g12506.t5.CDS8 | 24094305 | 24094401 |
| chr_1 | g12506 | g12506.t5 | TSS | g12506.t5 | 24094597 | 24094597 |
| chr_1 | g12506 | g12506.t5 | TTS | g12506.t5 | NA | NA |
Sequences
>g12506.t5 Gene=g12506 Length=1409
ATGAATAGACTTAACTTTGTTACTTTCTTTCTCATTTTGGGTGAGTTGGCAATTCAAAAT
ATTTTAAAAATTATCATATTGAAAAACTGATTTTATTTCAAAATATTTAGGGAACAACTT
AATTTATATTGATGCAGTTCCACCTTGCAATGATCCACCACTATGCCAAGAACTTATGGT
TCTTGATCCAGCACAATGTAAATGTGTTTGTGTAGATAATAGTGGAAGCAAACCTTGTCC
ACTTCCTTTTCCAACAGATTTTCCATGTCCATGTATTCAAGGACTTTCTACTGTAAATTC
TACTACTGCTGCTCCAGTTGCAACAATTGGTGCTCAAACAATTGGACCTGTTGTCATAAG
TCCTTGTAAAGTTAAACCAATAGCTTGTCCACCACCAAAAACATTTTGGGATTCAAATTC
ATGCAAATGTATCTGCGATCCAGGAGTCGATTGTCTTCATCCAACTTTTGTAATGAATCC
AGACACTTGTCTTTGTGAATGTGCAATTAAACCAACAACACCATGTCCATCAAATCAATT
TTTTAATCCTGCAACATGTAAATGTCAATGCAAAGACAATTGTTTGGGTAATGAATCAAT
CATGTGTGTTAAACCGCAAGTTTGGTCAGAAGACTCTTGTACTTGTAATTGTCCAAGTCC
AAATACGCAAATTTGTAAATCTAATAAATATTGGGATTTTGATACTTGTAACTGTGAATG
CAAAAATAAACAAAAAACTTGTTGTAAACCAAAAATATGGGATCCAACCAGCTGTCAATG
TATTTGTCCATTTATACAAGCATGTAAAGCACCTTTCATTTGGAGCGATGATTTATGCCA
ATGTGTTTGCAAACAGATAGTTTCATGTAAACCACCACTTGTATGGAATCCAAAACTCTG
CAAATGTACATGTCCACCAATAGATTGTCCACCTAATTTCATGCAAAATCCTTTTACTTG
TCAATGTATGTGCAATCAAGCAATGTCAAAAACTTGTGATACGTCAATTCAAGTGTGGAA
TCCAAAAAAATGTCAATGCGATTGCAAATTTCCAGTTGATTGCATACCAAACTACATTTT
TAATCCAAAAACATGTAAATGTGAATGCAACCAAGCTCTTTCTACATCTTGTAAGCCACC
ATTATCAATTTGGGATAAGACAAAATGTAAATGTGTTTGCAACATTGATTGTGCACCAAA
TTATATTCTTAATGAAGCAACTTGCAGTTGTGATTGCAATAAAGAACTTGTGTTATCTAC
TTGTGATCTCAACACTCATGTTTTTAATCCTGATAAATGTTCGTGTGATTGCAAACCAAT
TGTATGCCCTCCCAACTTTATTCAAAATCCTAAGACATGCAAATGTGACTGTGCACTTAC
TCAAGCTAGCTGTCCAGCTCCTCAAATTT
>g12506.t5 Gene=g12506 Length=411
MVLDPAQCKCVCVDNSGSKPCPLPFPTDFPCPCIQGLSTVNSTTAAPVATIGAQTIGPVV
ISPCKVKPIACPPPKTFWDSNSCKCICDPGVDCLHPTFVMNPDTCLCECAIKPTTPCPSN
QFFNPATCKCQCKDNCLGNESIMCVKPQVWSEDSCTCNCPSPNTQICKSNKYWDFDTCNC
ECKNKQKTCCKPKIWDPTSCQCICPFIQACKAPFIWSDDLCQCVCKQIVSCKPPLVWNPK
LCKCTCPPIDCPPNFMQNPFTCQCMCNQAMSKTCDTSIQVWNPKKCQCDCKFPVDCIPNY
IFNPKTCKCECNQALSTSCKPPLSIWDKTKCKCVCNIDCAPNYILNEATCSCDCNKELVL
STCDLNTHVFNPDKCSCDCKPIVCPPNFIQNPKTCKCDCALTQASCPAPQI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12506.t5 | PANTHER | PTHR11633:SF1 | LD28763P | 64 | 135 | 0.0000 |
| 7 | g12506.t5 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 64 | 135 | 0.0000 |
| 5 | g12506.t5 | PANTHER | PTHR11633:SF1 | LD28763P | 136 | 206 | 0.0000 |
| 9 | g12506.t5 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 136 | 206 | 0.0000 |
| 4 | g12506.t5 | PANTHER | PTHR11633:SF1 | LD28763P | 210 | 275 | 0.0000 |
| 8 | g12506.t5 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 210 | 275 | 0.0000 |
| 6 | g12506.t5 | PANTHER | PTHR11633:SF1 | LD28763P | 277 | 357 | 0.0000 |
| 10 | g12506.t5 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 277 | 357 | 0.0000 |
| 2 | g12506.t5 | Pfam | PF03128 | CXCXC repeat | 192 | 204 | 0.0065 |
| 1 | g12506.t5 | Pfam | PF03128 | CXCXC repeat | 301 | 311 | 0.0200 |
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 K05449 (vascular endothelial growth factor C/D)
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