General information for g5009.t25
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Restin-like protein.
Parent gene
- The parent gene g5009 is located on chr_2: 6422853..6423614 (- 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 | g5009 | g5009.t25 | TTS | g5009.t25 | 6410896 | 6410896 |
| chr_2 | g5009 | g5009.t25 | isoform | g5009.t25 | 6411376 | 6421462 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon1 | 6411376 | 6411551 |
| chr_2 | g5009 | g5009.t25 | cds | g5009.t25.CDS1 | 6411377 | 6411551 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon2 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t25 | cds | g5009.t25.CDS2 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon3 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t25 | cds | g5009.t25.CDS3 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon4 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t25 | cds | g5009.t25.CDS4 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon5 | 6413876 | 6413950 |
| chr_2 | g5009 | g5009.t25 | cds | g5009.t25.CDS5 | 6413876 | 6413918 |
| chr_2 | g5009 | g5009.t25 | exon | g5009.t25.exon6 | 6421285 | 6421462 |
| chr_2 | g5009 | g5009.t25 | TSS | g5009.t25 | 6421462 | 6421462 |
Sequences
>g5009.t25 Gene=g5009 Length=982
AGTTTTACTTTAGACTCGAATATAGTCAGTCACCTTAAAATTTTGCTGGCAATCTATATT
AACAACTTGATAAAAAAAATATTTTACAACCACAACAGATTAAGAGCAAAAAATACGACA
CAAATTAATTTTGAAAAAAAAAAATACTACGAAAAATCCATAAAGCAATTTAAATTAGGT
GAACTCAGTAACAACGACTACGGTGACACAATGCGACGTCAAAGCGATGATTATAAAACA
CACTATTTACCAGATCATGGAGCAGATTTAACGACAGACACAGATAGTTTTATGATAGGA
AATCGAGTTTATGTTGGAGGAGTTAAACCCGGTCGTATTACTTTTATTGGCGAAGTTCAT
TTCGCCCCGGGTGAATGGGCTGGAGTTGTTTTAGATGAGCCAGAAGGCAAAAATGATGGT
GCAGTTAGTGGAAAACGCTATTTTCAGTGTGAACCTAAAAAGGGAATATTTTCACGCCTC
ACACGACTAACTCGTGAACCATTATCATCAACCACAACTGATGGTCCATTAAGTACAGAT
TATAGCTTCCGTTCATTTACATCACCACTTCGAAACACATCGGGAAATACATCACCAACA
CAGAGTGTTTCTAGTGTCTCTAAAACAGCAGCTGGAACAAAAATTATTCCCGAAATAAAT
GATCGTGTTATTGTCAAGAGTGCAACTGGAAGTCGTGCTGGAATTCTTCGTTATCGTGGA
GAGCCAGCATTTGCTAGTGGTATTTGGTGTGGTGTTGAATATGAAGAGCCTGTTGGCAAA
AATGACGGATCAGTTAGTGGACAAAGATATTTCAAATGCGCACCCAATCATGGAATTTTT
GTGCCTGAAGGAAAGGTTGTTTTATCACCATTAGCACGAAAAATGCGCCTTTCAAGACAA
AATTCACAAGAATCGTTAACATCAAACATTACACTTAACAGCTTGGCTTCGACAAATACT
TCAAAATTGCGGTTAAATGCAA
>g5009.t25 Gene=g5009 Length=257
MRRQSDDYKTHYLPDHGADLTTDTDSFMIGNRVYVGGVKPGRITFIGEVHFAPGEWAGVV
LDEPEGKNDGAVSGKRYFQCEPKKGIFSRLTRLTREPLSSTTTDGPLSTDYSFRSFTSPL
RNTSGNTSPTQSVSSVSKTAAGTKIIPEINDRVIVKSATGSRAGILRYRGEPAFASGIWC
GVEYEEPVGKNDGSVSGQRYFKCAPNHGIFVPEGKVVLSPLARKMRLSRQNSQESLTSNI
TLNSLASTNTSKLRLNA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5009.t25 | Gene3D | G3DSA:2.30.30.190 | - | 25 | 108 | 2.5E-31 |
| 11 | g5009.t25 | Gene3D | G3DSA:2.30.30.190 | - | 123 | 224 | 4.1E-28 |
| 3 | g5009.t25 | PANTHER | PTHR18916:SF79 | RESTIN HOMOLOG | 12 | 254 | 2.8E-76 |
| 4 | g5009.t25 | PANTHER | PTHR18916 | DYNACTIN 1-RELATED MICROTUBULE-BINDING | 12 | 254 | 2.8E-76 |
| 2 | g5009.t25 | Pfam | PF01302 | CAP-Gly domain | 29 | 92 | 3.5E-22 |
| 1 | g5009.t25 | Pfam | PF01302 | CAP-Gly domain | 149 | 216 | 1.2E-23 |
| 10 | g5009.t25 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 47 | 78 | - |
| 9 | g5009.t25 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 170 | 201 | - |
| 14 | g5009.t25 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 47 | 89 | 17.73 |
| 13 | g5009.t25 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 170 | 212 | 18.036 |
| 7 | g5009.t25 | SMART | SM01052 | CAP_GLY_2 | 29 | 94 | 1.4E-28 |
| 8 | g5009.t25 | SMART | SM01052 | CAP_GLY_2 | 149 | 217 | 4.4E-31 |
| 5 | g5009.t25 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 20 | 112 | 1.57E-32 |
| 6 | g5009.t25 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 148 | 225 | 2.23E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5009/g5009.t25; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5009.t25.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.
