General information for g5752.t10
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.t10 | TSS | g5752.t10 | 11649385 | 11649385 |
| chr_2 | g5752 | g5752.t10 | isoform | g5752.t10 | 11649537 | 11660797 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon1 | 11649537 | 11649595 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon2 | 11655988 | 11656407 |
| chr_2 | g5752 | g5752.t10 | TTS | g5752.t10 | 11656306 | 11656306 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS1 | 11656326 | 11656407 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon3 | 11656723 | 11656850 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS2 | 11656723 | 11656850 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon4 | 11656907 | 11657159 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS3 | 11656907 | 11657159 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon5 | 11657225 | 11657352 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS4 | 11657225 | 11657352 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon6 | 11658009 | 11658150 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS5 | 11658009 | 11658150 |
| chr_2 | g5752 | g5752.t10 | exon | g5752.t10.exon7 | 11660153 | 11660797 |
| chr_2 | g5752 | g5752.t10 | cds | g5752.t10.CDS6 | 11660153 | 11660796 |
Sequences
>g5752.t10 Gene=g5752 Length=1775
AATTCATTGAAACGTAAAAAAAAGTAAAATATCAAAATAAAGAAATTGAAAATTTAAAAG
AAAATTTTCAATTTTCTCTGAAATTATACAAATAAAAATACATCTTGTTAAGTGATTCAC
CGCCTCGCAGCTCTAAGGCCGAGAGAGATTTTTATACATACATCAGAGAGCGAATTATGC
CGAAGTATTGGATATTTATACGATAACAAATAAACATAGAGAGTAAAAACACACAAATAC
AATACACAACTCTTAAGTGTAAAGAAATGAAAATTGAGAGGGAATATCGATAGACTGAAC
GACAAGTGTACAAATCTTTTTATCCATAAAACATGATGAGTAAATAAAACATCAAGATTT
TGCGAGATTAAGAAACAGAAAGAGAATAAAATTACAAATGATGTTTAAGCAGCTACCGGT
GCTTCTCTTCATTGTGCAACTATGGATGGAAATGCATTTAAGTGTCACGGCATTGATCGC
ACCAAATCCACTTCGAGGCTATCATGGTGCTCCAATAATTGATCCCTTTGATTCTGTAAT
AATTGATGTAAATGGTAAAAAATTAATTGAATGTAAAGGAAAAAGACCTGTTACATGGTT
GTCTGAGATAATCAATAAATATCCAGATAATGCCAAAGTTTCACATTTTTTATATGATAG
TAAAGATGATGATTCAATTTTATTTACTGATGAGCAAAATCTCTATCGAACTAATTTGGA
ATTAAGTGAAGTTACAGTAGATTTTGTTGGAGAATATTATTGCGTATTTAATGACACAAT
TAATGACGATCCAAATGACTTTGATTATGAAGAAAAAATCATAAATTATGAAGCATCGAG
TATTTACGTTTTTGTCAATGATCCAGAGAATCTATTATATGAACATCATCAGAACATTAT
ATGGGGTAGACAATATGAACCATTTGTGATTCCATGTAAACCAACATCACCTCAAGTTAG
AGTGGAATTAAAAAATGAAGATGGACAGCACCATTATGTAGGAACATATGACCCAAAACG
TGGATTTATAGTTTCATTTCATGATGTTGAAAGTAGCGGATTTTATGAGTGTTTAATAGC
AGATGATCCTTCAATTTTCACACAATTTCAAGTAATTATAAATGAACAATCACTGTCGGC
GTATATTAAAAAACCAATCATCACGAGTGAAACTGACTTTTACGCAAGAGATGGTGACCA
GTTGCAAATAACTTGTCATGTAGAATTAGAAAATGATGTTGCTTACAGTGTCTTCTTCAC
TTTGCCTAACGGAAAAGTTGTCAATGAAACAAGTGATTTTGTTGAGTTATCACAATTGAA
GCATGAACATGATAATCGAAAAAAATCTCACATTACTTTAACAATCGATCATGCTGAAGC
TACAAGAGACAAAGGCGATTATACTTGTACTGTTAAAGACTTGTATGAAAATTCAAACTC
AGTTGCTGCTACAATAGTTTTTGTTAATGAACCAATAATGGAATGGAAACCTGCAAATCA
AAATATCACAACAAATCAAGGAAAGAAAAGAGTTCAATTTTTAATTGAATATGTTGCTTA
TCCAGAAGCAACTTTTGAAGTTTACAACAATCATAATGAACTTATTGCAAGAGGAACTGA
TGTAATTAATCGTGAAAAATATGATGTTGTTATAAGCAAAATTGAAATTAAATTTGTTGT
AAAATCTCCAAATATTAAAGACTTTGGTGAATATACAATATTAGCAACAACTGATGGAAA
AAATTACACACAAAAACTTTATTTGACTGTAGCAG
>g5752.t10 Gene=g5752 Length=459
MMFKQLPVLLFIVQLWMEMHLSVTALIAPNPLRGYHGAPIIDPFDSVIIDVNGKKLIECK
GKRPVTWLSEIINKYPDNAKVSHFLYDSKDDDSILFTDEQNLYRTNLELSEVTVDFVGEY
YCVFNDTINDDPNDFDYEEKIINYEASSIYVFVNDPENLLYEHHQNIIWGRQYEPFVIPC
KPTSPQVRVELKNEDGQHHYVGTYDPKRGFIVSFHDVESSGFYECLIADDPSIFTQFQVI
INEQSLSAYIKKPIITSETDFYARDGDQLQITCHVELENDVAYSVFFTLPNGKVVNETSD
FVELSQLKHEHDNRKKSHITLTIDHAEATRDKGDYTCTVKDLYENSNSVAATIVFVNEPI
MEWKPANQNITTNQGKKRVQFLIEYVAYPEATFEVYNNHNELIARGTDVINREKYDVVIS
KIEIKFVVKSPNIKDFGEYTILATTDGKNYTQKLYLTVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5752.t10 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 8 | 155 | 1.7E-9 |
| 7 | g5752.t10 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 156 | 242 | 1.1E-13 |
| 8 | g5752.t10 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 250 | 354 | 1.1E-8 |
| 6 | g5752.t10 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 355 | 459 | 5.5E-6 |
| 2 | g5752.t10 | PANTHER | PTHR15360 | PLATELET-DERIVED GROWTH FACTOR RECEPTOR LIKE | 58 | 356 | 1.9E-20 |
| 14 | g5752.t10 | PIRSF | PIRSF000615 | TyrPK_CSF1-R | 10 | 459 | 4.7E-32 |
| 1 | g5752.t10 | Pfam | PF00047 | Immunoglobulin domain | 262 | 349 | 5.7E-6 |
| 10 | g5752.t10 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 34 | - |
| 11 | g5752.t10 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g5752.t10 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 13 | g5752.t10 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 34 | - |
| 9 | g5752.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 459 | - |
| 18 | g5752.t10 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 253 | 354 | 7.758 |
| 17 | g5752.t10 | SMART | SM00409 | IG_3c | 44 | 154 | 2.1 |
| 16 | g5752.t10 | SMART | SM00409 | IG_3c | 165 | 242 | 24.0 |
| 15 | g5752.t10 | SMART | SM00409 | IG_3c | 258 | 355 | 0.2 |
| 3 | g5752.t10 | SUPERFAMILY | SSF48726 | Immunoglobulin | 253 | 347 | 2.75E-6 |
| 4 | g5752.t10 | 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.t10; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5752.t10.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. There were no conditions that were differentially expressed