General information for g5752.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5752 is located on chr_2: 11665148..11666050 (+ 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 | g5752 | g5752.t9 | isoform | g5752.t9 | 11649385 | 11660797 |
| chr_2 | g5752 | g5752.t9 | TSS | g5752.t9 | 11649385 | 11649385 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon1 | 11649385 | 11649595 |
| chr_2 | g5752 | g5752.t9 | TTS | g5752.t9 | 11649621 | 11649621 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon2 | 11655988 | 11656407 |
| chr_2 | g5752 | g5752.t9 | cds | g5752.t9.CDS1 | 11656326 | 11656407 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon3 | 11656723 | 11656850 |
| chr_2 | g5752 | g5752.t9 | cds | g5752.t9.CDS2 | 11656723 | 11656850 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon4 | 11656907 | 11657159 |
| chr_2 | g5752 | g5752.t9 | cds | g5752.t9.CDS3 | 11656907 | 11657159 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon5 | 11657225 | 11657491 |
| chr_2 | g5752 | g5752.t9 | cds | g5752.t9.CDS4 | 11657225 | 11657491 |
| chr_2 | g5752 | g5752.t9 | exon | g5752.t9.exon6 | 11660153 | 11660797 |
| chr_2 | g5752 | g5752.t9 | cds | g5752.t9.CDS5 | 11660153 | 11660796 |
Sequences
>g5752.t9 Gene=g5752 Length=1924
CATTCATTGTGTCGTTCGCAGAGCAGTCAGACGTGTTTTCGTTCATAGTCTCTATTGGAA
TGAAATAAAAAAGAATGTATTAAGTCACCTTTACAGTTAAGTGTGTGTGATCGTGATTTT
ACAATCAAAAAACATATTCATTCTTTAAAAAGAATTCATTGAAACGTAAAAAAAAGTAAA
ATATCAAAATAAAGAAATTGAAAATTTAAAAGAAAATTTTCAATTTTCTCTGAAATTATA
CAAATAAAAATACATCTTGTTAAGTGATTCACCGCCTCGCAGCTCTAAGGCCGAGAGAGA
TTTTTATACATACATCAGAGAGCGAATTATGCCGAAGTATTGGATATTTATACGATAACA
AATAAACATAGAGAGTAAAAACACACAAATACAATACACAACTCTTAAGTGTAAAGAAAT
GAAAATTGAGAGGGAATATCGATAGACTGAACGACAAGTGTACAAATCTTTTTATCCATA
AAACATGATGAGTAAATAAAACATCAAGATTTTGCGAGATTAAGAAACAGAAAGAGAATA
AAATTACAAATGATGTTTAAGCAGCTACCGGTGCTTCTCTTCATTGTGCAACTATGGATG
GAAATGCATTTAAGTGTCACGGCATTGATCGCACCAAATCCACTTCGAGGCTATCATGGT
GCTCCAATAATTGATCCCTTTGATTCTGTAATAATTGATGTAAATGGTAAAAAATTAATT
GAATGTAAAGGAAAAAGACCTGTTACATGGTTGTCTGAGATAATCAATAAATATCCAGAT
AATGCCAAAGTTTCACATTTTTTATATGATAGTAAAGATGATGATTCAATTTTATTTACT
GATGAGCAAAATCTCTATCGAACTAATTTGGAATTAAGTGAAGTTACAGTAGATTTTGTT
GGAGAATATTATTGCGTATTTAATGACACAATTAATGACGATCCAAATGACTTTGATTAT
GAAGAAAAAATCATAAATTATGAAGCATCGAGTATTTACGTTTTTGTCAATGATCCAGAG
AATCTATTATATGAACATCATCAGAACATTATATGGGGTAGACAATATGAACCATTTGTG
ATTCCATGTAAACCAACATCACCTCAAGTTAGAGTGGAATTAAAAAATGAAGATGGACAG
GTAATCGACTGTGAATTTTTTAATAATCGAAAAGGATTTGAAATAGTTTTAAACGAGTCA
ATTGCTGTATCTTTCATGGATTGTTTTGGATATTTAAATGATAAAACAGAAGAAAAGCAA
ATAAATTACGAAATCGCACCACTGTCGGCGTATATTAAAAAACCAATCATCACGAGTGAA
ACTGACTTTTACGCAAGAGATGGTGACCAGTTGCAAATAACTTGTCATGTAGAATTAGAA
AATGATGTTGCTTACAGTGTCTTCTTCACTTTGCCTAACGGAAAAGTTGTCAATGAAACA
AGTGATTTTGTTGAGTTATCACAATTGAAGCATGAACATGATAATCGAAAAAAATCTCAC
ATTACTTTAACAATCGATCATGCTGAAGCTACAAGAGACAAAGGCGATTATACTTGTACT
GTTAAAGACTTGTATGAAAATTCAAACTCAGTTGCTGCTACAATAGTTTTTGTTAATGAA
CCAATAATGGAATGGAAACCTGCAAATCAAAATATCACAACAAATCAAGGAAAGAAAAGA
GTTCAATTTTTAATTGAATATGTTGCTTATCCAGAAGCAACTTTTGAAGTTTACAACAAT
CATAATGAACTTATTGCAAGAGGAACTGATGTAATTAATCGTGAAAAATATGATGTTGTT
ATAAGCAAAATTGAAATTAAATTTGTTGTAAAATCTCCAAATATTAAAGACTTTGGTGAA
TATACAATATTAGCAACAACTGATGGAAAAAATTACACACAAAAACTTTATTTGACTGTA
GCAG
>g5752.t9 Gene=g5752 Length=458
MMFKQLPVLLFIVQLWMEMHLSVTALIAPNPLRGYHGAPIIDPFDSVIIDVNGKKLIECK
GKRPVTWLSEIINKYPDNAKVSHFLYDSKDDDSILFTDEQNLYRTNLELSEVTVDFVGEY
YCVFNDTINDDPNDFDYEEKIINYEASSIYVFVNDPENLLYEHHQNIIWGRQYEPFVIPC
KPTSPQVRVELKNEDGQVIDCEFFNNRKGFEIVLNESIAVSFMDCFGYLNDKTEEKQINY
EIAPLSAYIKKPIITSETDFYARDGDQLQITCHVELENDVAYSVFFTLPNGKVVNETSDF
VELSQLKHEHDNRKKSHITLTIDHAEATRDKGDYTCTVKDLYENSNSVAATIVFVNEPIM
EWKPANQNITTNQGKKRVQFLIEYVAYPEATFEVYNNHNELIARGTDVINREKYDVVISK
IEIKFVVKSPNIKDFGEYTILATTDGKNYTQKLYLTVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5752.t9 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 8 | 158 | 1.7E-9 |
| 5 | g5752.t9 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 159 | 243 | 3.8E-9 |
| 8 | g5752.t9 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 249 | 354 | 1.0E-8 |
| 7 | g5752.t9 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 355 | 458 | 5.5E-6 |
| 2 | g5752.t9 | PANTHER | PTHR15360 | PLATELET-DERIVED GROWTH FACTOR RECEPTOR LIKE | 57 | 355 | 2.8E-17 |
| 1 | g5752.t9 | Pfam | PF00047 | Immunoglobulin domain | 261 | 348 | 5.7E-6 |
| 10 | g5752.t9 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 34 | - |
| 11 | g5752.t9 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g5752.t9 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 13 | g5752.t9 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 34 | - |
| 9 | g5752.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 458 | - |
| 16 | g5752.t9 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 252 | 353 | 7.758 |
| 15 | g5752.t9 | SMART | SM00409 | IG_3c | 44 | 154 | 2.1 |
| 14 | g5752.t9 | SMART | SM00409 | IG_3c | 257 | 354 | 0.2 |
| 3 | g5752.t9 | SUPERFAMILY | SSF48726 | Immunoglobulin | 252 | 457 | 1.03E-6 |
| 4 | g5752.t9 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 25 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5752/g5752.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5752.t9.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
