General information for g5009.t23
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.t23 | TTS | g5009.t23 | 6409138 | 6409138 |
| chr_2 | g5009 | g5009.t23 | isoform | g5009.t23 | 6409954 | 6421299 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon1 | 6409954 | 6409964 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS1 | 6409956 | 6409964 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon2 | 6411092 | 6411157 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS2 | 6411092 | 6411157 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon3 | 6411368 | 6411551 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS3 | 6411368 | 6411551 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon4 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS4 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon5 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS5 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon6 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS6 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon7 | 6412791 | 6412853 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS7 | 6412791 | 6412853 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon8 | 6413085 | 6413216 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS8 | 6413085 | 6413216 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon9 | 6413876 | 6413950 |
| chr_2 | g5009 | g5009.t23 | cds | g5009.t23.CDS9 | 6413876 | 6413918 |
| chr_2 | g5009 | g5009.t23 | exon | g5009.t23.exon10 | 6421285 | 6421299 |
| chr_2 | g5009 | g5009.t23 | TSS | g5009.t23 | 6421462 | 6421462 |
Sequences
>g5009.t23 Gene=g5009 Length=1099
AGCAATTTAAATTAGGTGAACTCAGTAACAACGACTACGGTGACACAATGCGACGTCAAA
GCGATGATTATAAAACACACTATTTACCAGATGTAAGTGAAGAAAGCGAATATGACTTGC
TATATGACCGTTTTGGACTTGGTTATCGCTCATCTAAATCTAAATCACAATCACCTGATC
CATTTCGATTGTACAAGTATTCGCCCGATCGCAAAAGTTCAAGTGGTATATCCTCCTCTG
TATCACCAGACTTTTTTGAAGCCACTGGCAGACGATCAAGCTCAGATCATGGAGCAGATT
TAACGACAGACACAGATAGTTTTATGATAGGAAATCGAGTTTATGTTGGAGGAGTTAAAC
CCGGTCGTATTACTTTTATTGGCGAAGTTCATTTCGCCCCGGGTGAATGGGCTGGAGTTG
TTTTAGATGAGCCAGAAGGCAAAAATGATGGTGCAGTTAGTGGAAAACGCTATTTTCAGT
GTGAACCTAAAAAGGGAATATTTTCACGCCTCACACGACTAACTCGTGAACCATTATCAT
CAACCACAACTGATGGTCCATTAAGTACAGATTATAGCTTCCGTTCATTTACATCACCAC
TTCGAAACACATCGGGAAATACATCACCAACACAGAGTGTTTCTAGTGTCTCTAAAACAG
CAGCTGGAACAAAAATTATTCCCGAAATAAATGATCGTGTTATTGTCAAGAGTGCAACTG
GAAGTCGTGCTGGAATTCTTCGTTATCGTGGAGAGCCAGCATTTGCTAGTGGTATTTGGT
GTGGTGTTGAATATGAAGAGCCTGTTGGCAAAAATGACGGATCAGTTAGTGGACAAAGAT
ATTTCAAATGCGCACCCAATCATGGAATTTTTGTGCCTGAAGGAAAGGTTGTTTTATCAC
CATTAGCACGAAAAATGCGCCTTTCAAGACAAAATTCACAAGAATCGTTAACATCAAACA
TTACACTTAACAGCTTGGCTTCGACAAATACTTCAAAATTGCGGTTAAATGCAACACAAA
AGCGCCTATCGACACTTAATAAGTCACCATCGGCAACGTCAACACCAAAACCCTCGTTCT
CGTTGCAGGACATTTTACG
>g5009.t23 Gene=g5009 Length=350
MRRQSDDYKTHYLPDVSEESEYDLLYDRFGLGYRSSKSKSQSPDPFRLYKYSPDRKSSSG
ISSSVSPDFFEATGRRSSSDHGADLTTDTDSFMIGNRVYVGGVKPGRITFIGEVHFAPGE
WAGVVLDEPEGKNDGAVSGKRYFQCEPKKGIFSRLTRLTREPLSSTTTDGPLSTDYSFRS
FTSPLRNTSGNTSPTQSVSSVSKTAAGTKIIPEINDRVIVKSATGSRAGILRYRGEPAFA
SGIWCGVEYEEPVGKNDGSVSGQRYFKCAPNHGIFVPEGKVVLSPLARKMRLSRQNSQES
LTSNITLNSLASTNTSKLRLNATQKRLSTLNKSPSATSTPKPSFSLQDIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5009.t23 | Gene3D | G3DSA:2.30.30.190 | - | 76 | 169 | 2.1E-31 |
| 7 | g5009.t23 | Gene3D | G3DSA:2.30.30.190 | - | 188 | 289 | 7.5E-28 |
| 13 | g5009.t23 | MobiDBLite | mobidb-lite | consensus disorder prediction | 327 | 350 | - |
| 3 | g5009.t23 | PANTHER | PTHR18916:SF79 | RESTIN HOMOLOG | 58 | 328 | 1.0E-75 |
| 4 | g5009.t23 | PANTHER | PTHR18916 | DYNACTIN 1-RELATED MICROTUBULE-BINDING | 58 | 328 | 1.0E-75 |
| 2 | g5009.t23 | Pfam | PF01302 | CAP-Gly domain | 94 | 157 | 5.9E-22 |
| 1 | g5009.t23 | Pfam | PF01302 | CAP-Gly domain | 214 | 281 | 2.0E-23 |
| 10 | g5009.t23 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 112 | 143 | - |
| 9 | g5009.t23 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 235 | 266 | - |
| 14 | g5009.t23 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 112 | 154 | 17.73 |
| 15 | g5009.t23 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 235 | 277 | 18.036 |
| 12 | g5009.t23 | SMART | SM01052 | CAP_GLY_2 | 94 | 159 | 1.4E-28 |
| 11 | g5009.t23 | SMART | SM01052 | CAP_GLY_2 | 214 | 282 | 4.4E-31 |
| 5 | g5009.t23 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 74 | 176 | 7.72E-33 |
| 6 | g5009.t23 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 213 | 295 | 2.09E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5009/g5009.t23; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5009.t23.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.
