General information for g5201.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5201 is located on chr_2: 7629913..7631991 (+ 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 | g5201 | g5201.t5 | isoform | g5201.t5 | 7629913 | 7631991 |
| chr_2 | g5201 | g5201.t5 | exon | g5201.t5.exon1 | 7629913 | 7630894 |
| chr_2 | g5201 | g5201.t5 | cds | g5201.t5.CDS1 | 7629973 | 7630894 |
| chr_2 | g5201 | g5201.t5 | exon | g5201.t5.exon2 | 7630955 | 7631113 |
| chr_2 | g5201 | g5201.t5 | cds | g5201.t5.CDS2 | 7630955 | 7631113 |
| chr_2 | g5201 | g5201.t5 | exon | g5201.t5.exon3 | 7631182 | 7631991 |
| chr_2 | g5201 | g5201.t5 | cds | g5201.t5.CDS3 | 7631182 | 7631414 |
| chr_2 | g5201 | g5201.t5 | TTS | g5201.t5 | 7632003 | 7632003 |
| chr_2 | g5201 | g5201.t5 | TSS | g5201.t5 | NA | NA |
Sequences
>g5201.t5 Gene=g5201 Length=1951
AAATATACTAAAGTTGATCCAAACTTGATTTTGGAATTTAGTAAAATTCATGAAGGATGG
ATGAAAAGTTTGAAGATTTTGTTTGATTGGTTGCATTTGGATAATGAAACCATCGAAAGT
TGTTACCGTAGCAATCCAGAATTTATTGGAAAAATCATTCGACTTATGAATTTCATTAAC
ATTGACATTTTTACTCGTAAAATTTATTTTGATCGCTCAATGATCAAGTTTAAAAATGTT
CGTGAAGATTTACGTTACATTTTTGACAATCGTCACCAAATTGCAACAACTGAGGACATA
ATTTTCAAGAAAAATGTAATATTTGAAGAACTTCAACAAACAATTGATTGGAATTTGAAT
TATAAATTGCAAATAACACCAGAAGAGGATGTCATATTGAGAATTTTTAAAATGATTGAT
TTTGGTTTTCATTTGATCAAGATTAAAAAGTTTAACTACAATTTTTGTGCTCGTTCGAGA
GTTTTTATTGAAAAGACCAATCGTCGCAGATCAAGAAAAACTAGCGATGATTCTCGTAGA
AAATTCAAAAATGAAGAGCGTGGCAATCGACGTGAACGTAAAAGAAATCGTCGTAGGAAG
AGACGTGAAGAAAGAAAGTTGAGAAACTCTGAAAGCGATCGTTTTGAACGACTTTCTATT
AAAACTCATTCACAAGGAAGTCAAGAAATTGAAGAATTTCCTTCAATTGAAAAATCAAAT
CAATGCAGTGTTCGTAAAGGATATTTGTCAAATAAAATTGCTGAAAGAGAAAAATCTGAA
GCAGAAAAGAAAGAGATGATGGGAAAACTTGGAAAATTATGGTTGAAGAATGAAGTTCAA
ACTTTGGAGTCACGTTCAAAACCAGTCAACACCAATATGACACCATTTTTGATGCTCGAT
ACTAATGCACTCACTGACTATTTGTATGTCGTAAAAGCCTTGGTCAAAACTAAAAAATTC
ATTGTATTGATTCCCAAAGCAGTTTTACAAGATATTGATGGATTAAAGAAAAATAAGGAA
AGTGCTCGTAATGCAATCAAATGGCTCGAAACAGAATTTCAAAAAGGAAATCGTTTTCTC
AGAACTCAACGTGACTCAGAAATTTTACAAATGCCATACTTGAAAGTTCCATCAAAATTG
GAACGTGAGGATGCAGTTTTCATGAACATCGTTCCATTTGCAAATTTTATTGTATCAAAT
AACACGAGCGATTGTGGATCAGATTTGCCAATTTTGACATTGCTAACAGGCGAAAATTTG
GATACTAAAAAATCATCTACCACAAGCAACATCAATCAGATTGGAATCTTACAGTCGATT
CCGGTCAAATATGATCAAATTTATCGTTTCTTTTCAAAATATAAAAAGAAGTGAAGCATG
CTTGTGACGATTAGCTTGGATAAAGTTTAAATTGAGGAAAATAACTATTTTTCGGATATG
GTGAAATATTCAGCAAAGTAAATTTTTGAGAGATAAGCAACCAATACACACACATACAAA
ATGGTGTAGAGATGCTAACCATCATCATCAAAGAAGAATTTCATAAATATGTAATTGAAT
GTCGATGATTGTGTATGGATGTTTAAAAGCTTAGAAAGACCTACACTCACAGTCATATTT
CTTTTGTAGTCCAAGATACTTTTCATCGTCGCTAAGAAAGAAATTCTTCTTGCTAAAAGT
CTCATATAAAAAATTATAATCGTCGTCGTGATGACATGATTCCATTTCTTGCTCCATCAG
AAAATACTTTTGGAGTGTTTAAATTCAACCGCTCTTATTTTCTTTTCTGCACTTATATAA
AATATATTTTATTCGTTTTTCGGTTAAATTTTCTAAATTTATATTTTTTTATTTTTCGAC
ATACACATTTGCACCGCATCTTTACAATTTTTTTTCTTTTAATTAATCTTTCCTATATTA
TAATCAAACCATAATTAAAATTAAAAATAAA
>g5201.t5 Gene=g5201 Length=437
MKSLKILFDWLHLDNETIESCYRSNPEFIGKIIRLMNFINIDIFTRKIYFDRSMIKFKNV
REDLRYIFDNRHQIATTEDIIFKKNVIFEELQQTIDWNLNYKLQITPEEDVILRIFKMID
FGFHLIKIKKFNYNFCARSRVFIEKTNRRRSRKTSDDSRRKFKNEERGNRRERKRNRRRK
RREERKLRNSESDRFERLSIKTHSQGSQEIEEFPSIEKSNQCSVRKGYLSNKIAEREKSE
AEKKEMMGKLGKLWLKNEVQTLESRSKPVNTNMTPFLMLDTNALTDYLYVVKALVKTKKF
IVLIPKAVLQDIDGLKKNKESARNAIKWLETEFQKGNRFLRTQRDSEILQMPYLKVPSKL
EREDAVFMNIVPFANFIVSNNTSDCGSDLPILTLLTGENLDTKKSSTTSNINQIGILQSI
PVKYDQIYRFFSKYKKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5201.t5 | CDD | cd09884 | PIN_Smg5-like | 275 | 435 | 1.42205E-54 |
| 10 | g5201.t5 | Coils | Coil | Coil | 173 | 193 | - |
| 9 | g5201.t5 | Coils | Coil | Coil | 312 | 332 | - |
| 8 | g5201.t5 | Gene3D | G3DSA:3.40.50.1010 | - | 273 | 437 | 1.5E-43 |
| 6 | g5201.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 147 | 171 | - |
| 7 | g5201.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 147 | 213 | - |
| 5 | g5201.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 185 | 200 | - |
| 2 | g5201.t5 | PANTHER | PTHR15696:SF7 | PROTEIN SMG5 | 234 | 403 | 7.0E-35 |
| 3 | g5201.t5 | PANTHER | PTHR15696 | SMG-7 SUPPRESSOR WITH MORPHOLOGICAL EFFECT ON GENITALIA PROTEIN 7 | 234 | 403 | 7.0E-35 |
| 1 | g5201.t5 | Pfam | PF13638 | PIN domain | 278 | 350 | 4.0E-7 |
| 4 | g5201.t5 | SMART | SM00670 | PIN_9 | 275 | 386 | 0.0016 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5201/g5201.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5201.t5.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.
