General information for g15038.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15038 is located on chr_4: 3628393..3629464 (- 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_4 | g15038 | g15038.t1 | isoform | g15038.t1 | 3628393 | 3629464 |
| chr_4 | g15038 | g15038.t1 | exon | g15038.t1.exon1 | 3628393 | 3628583 |
| chr_4 | g15038 | g15038.t1 | cds | g15038.t1.CDS1 | 3628393 | 3628583 |
| chr_4 | g15038 | g15038.t1 | exon | g15038.t1.exon2 | 3628642 | 3629464 |
| chr_4 | g15038 | g15038.t1 | cds | g15038.t1.CDS2 | 3628642 | 3629464 |
| chr_4 | g15038 | g15038.t1 | TSS | g15038.t1 | NA | NA |
| chr_4 | g15038 | g15038.t1 | TTS | g15038.t1 | NA | NA |
Sequences
>g15038.t1 Gene=g15038 Length=1014
ATGGAAATTTTTCAATTAATTTTTATTCTTTTATTATCAAATTTAATTTTTGTGACTGCT
GAATCAAGTAGCAGCAGTAGTGCATCATCAAATGACACTAAAAAAATTTCTTGCAATTTA
GTCTGTGAAAATTGTGATGAACTTGATCCATCAACATGCACTTGCATTTCCAAAATTGTT
GATTGTAAAATTGGCTTTGTTTATGACTACGAAGTCTGCAAGTGCATTCAAGTCATTAAT
TCAACTGACTCATCATTCCCTTGTGAACCAACTGAACCATGCCCTGAAGGAACAAACTGG
GATCCAAAAAAGTGTCGCTGCATTTGTGAAATTTTGCCTGTTTGTTCATCAGATCATTAT
GCTGATTCCGACACATGTCAATGTCTTTGTAAATTTCCAGTCGATTGTGCTCCAGGATAT
TTCTATGATGAATTAATTTGTAAATGTGTGCCAAGTCATGATCCATCATGTCCACCACAT
TTCACTTATGATCCAACATTATGTCGATGCATTTGTGATCGAGAAGTTGATTGCCGTTAT
AATTTTATTTGGGATGACACTTTATGTCGCTGTGTTTGTTCACAATCACAAAAATGTCCC
AATGGATTCATATGGAGTGACAAAGAATGTGATTGCTTGTGCAATGTTGATAAAATTTGC
AAGAAAAATTTCATTTTTGATAAACGTTCTTGTGATTGCGTTTGTGATCCAAAATTGGCA
TTTACAAAATGTTCTGAGGGAGAAATTTTTGATACAAAATTATGTAGTTGTGTTCCAGGT
GCTAAACCAGATTGCCCAAGTGGATTTGTTTATAACGACACAGCTTGTGACTGTGTTTGT
GCTGATATTAAGCCTTGTGTAAATTTGCAATTTTGGAATCCTGACACTTGTGAATGCATT
TGCCCACCTGATGCTGCAACTTATTGCAAAAAAGGAAAATTAGATGTGAAGAAATGCAAT
TGTTTGCCAGAAGAATTTGGAAATCTTTCAAATAAAACAAATAATGGAGCATAA
>g15038.t1 Gene=g15038 Length=337
MEIFQLIFILLLSNLIFVTAESSSSSSASSNDTKKISCNLVCENCDELDPSTCTCISKIV
DCKIGFVYDYEVCKCIQVINSTDSSFPCEPTEPCPEGTNWDPKKCRCICEILPVCSSDHY
ADSDTCQCLCKFPVDCAPGYFYDELICKCVPSHDPSCPPHFTYDPTLCRCICDREVDCRY
NFIWDDTLCRCVCSQSQKCPNGFIWSDKECDCLCNVDKICKKNFIFDKRSCDCVCDPKLA
FTKCSEGEIFDTKLCSCVPGAKPDCPSGFVYNDTACDCVCADIKPCVNLQFWNPDTCECI
CPPDAATYCKKGKLDVKKCNCLPEEFGNLSNKTNNGA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g15038.t1 | PANTHER | PTHR11633:SF1 | LD28763P | 93 | 153 | 2.0E-25 |
| 9 | g15038.t1 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 93 | 153 | 2.0E-25 |
| 4 | g15038.t1 | PANTHER | PTHR11633:SF1 | LD28763P | 156 | 215 | 2.0E-25 |
| 8 | g15038.t1 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 156 | 215 | 2.0E-25 |
| 3 | g15038.t1 | PANTHER | PTHR11633:SF1 | LD28763P | 205 | 261 | 2.0E-25 |
| 7 | g15038.t1 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 205 | 261 | 2.0E-25 |
| 2 | g15038.t1 | PANTHER | PTHR11633:SF1 | LD28763P | 255 | 325 | 2.0E-25 |
| 6 | g15038.t1 | PANTHER | PTHR11633 | PLATELET-DERIVED GROWTH FACTOR | 255 | 325 | 2.0E-25 |
| 1 | g15038.t1 | Pfam | PF03128 | CXCXC repeat | 290 | 301 | 0.014 |
| 13 | g15038.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 30 | - |
| 14 | g15038.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 15 | g15038.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 16 | g15038.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 30 | - |
| 12 | g15038.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 337 | - |
| 11 | g15038.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 10 | g15038.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 28 | - |
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