General information for g5009.t24
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.t24 | TTS | g5009.t24 | 6410896 | 6410896 |
| chr_2 | g5009 | g5009.t24 | isoform | g5009.t24 | 6411063 | 6421462 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon1 | 6411063 | 6411551 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS1 | 6411353 | 6411551 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon2 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS2 | 6411616 | 6411781 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon3 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS3 | 6411845 | 6412078 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon4 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS4 | 6412150 | 6412302 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon5 | 6412791 | 6412853 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS5 | 6412791 | 6412853 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon6 | 6413085 | 6413216 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS6 | 6413085 | 6413216 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon7 | 6413876 | 6413950 |
| chr_2 | g5009 | g5009.t24 | cds | g5009.t24.CDS7 | 6413876 | 6413918 |
| chr_2 | g5009 | g5009.t24 | exon | g5009.t24.exon8 | 6421285 | 6421462 |
| chr_2 | g5009 | g5009.t24 | TSS | g5009.t24 | 6421462 | 6421462 |
Sequences
>g5009.t24 Gene=g5009 Length=1490
AGTTTTACTTTAGACTCGAATATAGTCAGTCACCTTAAAATTTTGCTGGCAATCTATATT
AACAACTTGATAAAAAAAATATTTTACAACCACAACAGATTAAGAGCAAAAAATACGACA
CAAATTAATTTTGAAAAAAAAAAATACTACGAAAAATCCATAAAGCAATTTAAATTAGGT
GAACTCAGTAACAACGACTACGGTGACACAATGCGACGTCAAAGCGATGATTATAAAACA
CACTATTTACCAGATGTAAGTGAAGAAAGCGAATATGACTTGCTATATGACCGTTTTGGA
CTTGGTTATCGCTCATCTAAATCTAAATCACAATCACCTGATCCATTTCGATTGTACAAG
TATTCGCCCGATCGCAAAAGTTCAAGTGGTATATCCTCCTCTGTATCACCAGACTTTTTT
GAAGCCACTGGCAGACGATCAAGCTCAGATCATGGAGCAGATTTAACGACAGACACAGAT
AGTTTTATGATAGGAAATCGAGTTTATGTTGGAGGAGTTAAACCCGGTCGTATTACTTTT
ATTGGCGAAGTTCATTTCGCCCCGGGTGAATGGGCTGGAGTTGTTTTAGATGAGCCAGAA
GGCAAAAATGATGGTGCAGTTAGTGGAAAACGCTATTTTCAGTGTGAACCTAAAAAGGGA
ATATTTTCACGCCTCACACGACTAACTCGTGAACCATTATCATCAACCACAACTGATGGT
CCATTAAGTACAGATTATAGCTTCCGTTCATTTACATCACCACTTCGAAACACATCGGGA
AATACATCACCAACACAGAGTGTTTCTAGTGTCTCTAAAACAGCAGCTGGAACAAAAATT
ATTCCCGAAATAAATGATCGTGTTATTGTCAAGAGTGCAACTGGAAGTCGTGCTGGAATT
CTTCGTTATCGTGGAGAGCCAGCATTTGCTAGTGGTATTTGGTGTGGTGTTGAATATGAA
GAGCCTGTTGGCAAAAATGACGGATCAGTTAGTGGACAAAGATATTTCAAATGCGCACCC
AATCATGGAATTTTTGTGCCTGAAGGAAAGGTTGTTTTATCACCATTAGCACGAAAAATG
CGCCTTTCAAGACAAAATTCACAAGAATCGTTAACATCAAACATTACACTTAACAGCTTG
GCTTCGACAAATACTTCAAAATTGCGGTTAAATGCAACACAAAAGGTATCAGTTGCTTGA
AATTCTTCTTTGCCTTTAGCCACTTCTTTTGCGAGTAGATTTTCTTTGATATTCGCACAA
GTATCTGTTTTGCTTTGATTTATCTTCTTCTTTATTTTAATTTATGATTAGTTTAAAGCA
ACAAAAACTAACATGACTGATTAATTTACAAATTAATATATTATATCCCCAATATTTGCA
TAAAACTTTTTATAGCGCCTATCGACACTTAATAAGTCACCATCGGCAACGTCAACACCA
AAACCCTCGTTCTCGTTGCAGGTAGAGTTGTTTTTTTTTGTTCATTTACT
>g5009.t24 Gene=g5009 Length=329
MRRQSDDYKTHYLPDVSEESEYDLLYDRFGLGYRSSKSKSQSPDPFRLYKYSPDRKSSSG
ISSSVSPDFFEATGRRSSSDHGADLTTDTDSFMIGNRVYVGGVKPGRITFIGEVHFAPGE
WAGVVLDEPEGKNDGAVSGKRYFQCEPKKGIFSRLTRLTREPLSSTTTDGPLSTDYSFRS
FTSPLRNTSGNTSPTQSVSSVSKTAAGTKIIPEINDRVIVKSATGSRAGILRYRGEPAFA
SGIWCGVEYEEPVGKNDGSVSGQRYFKCAPNHGIFVPEGKVVLSPLARKMRLSRQNSQES
LTSNITLNSLASTNTSKLRLNATQKVSVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5009.t24 | Gene3D | G3DSA:2.30.30.190 | - | 76 | 169 | 1.9E-31 |
| 11 | g5009.t24 | Gene3D | G3DSA:2.30.30.190 | - | 188 | 289 | 6.7E-28 |
| 3 | g5009.t24 | PANTHER | PTHR18916:SF79 | RESTIN HOMOLOG | 58 | 321 | 1.1E-75 |
| 4 | g5009.t24 | PANTHER | PTHR18916 | DYNACTIN 1-RELATED MICROTUBULE-BINDING | 58 | 321 | 1.1E-75 |
| 2 | g5009.t24 | Pfam | PF01302 | CAP-Gly domain | 94 | 157 | 5.3E-22 |
| 1 | g5009.t24 | Pfam | PF01302 | CAP-Gly domain | 214 | 281 | 1.8E-23 |
| 10 | g5009.t24 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 112 | 143 | - |
| 9 | g5009.t24 | ProSitePatterns | PS00845 | CAP-Gly domain signature. | 235 | 266 | - |
| 13 | g5009.t24 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 112 | 154 | 17.73 |
| 14 | g5009.t24 | ProSiteProfiles | PS50245 | CAP-Gly domain profile. | 235 | 277 | 18.036 |
| 8 | g5009.t24 | SMART | SM01052 | CAP_GLY_2 | 94 | 159 | 1.4E-28 |
| 7 | g5009.t24 | SMART | SM01052 | CAP_GLY_2 | 214 | 282 | 4.4E-31 |
| 6 | g5009.t24 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 74 | 176 | 6.94E-33 |
| 5 | g5009.t24 | SUPERFAMILY | SSF74924 | Cap-Gly domain | 213 | 292 | 2.75E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5009/g5009.t24; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5009.t24.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.
