General information for g5100.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynamin-1-like protein.
Parent gene
- The parent gene g5100 is located on chr_2: 6874307..6875040 (- 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 | g5100 | g5100.t6 | isoform | g5100.t6 | 6873468 | 6875040 |
| chr_2 | g5100 | g5100.t6 | exon | g5100.t6.exon1 | 6873468 | 6874246 |
| chr_2 | g5100 | g5100.t6 | cds | g5100.t6.CDS1 | 6873468 | 6874246 |
| chr_2 | g5100 | g5100.t6 | exon | g5100.t6.exon2 | 6874305 | 6874526 |
| chr_2 | g5100 | g5100.t6 | cds | g5100.t6.CDS2 | 6874305 | 6874422 |
| chr_2 | g5100 | g5100.t6 | exon | g5100.t6.exon3 | 6874589 | 6875040 |
| chr_2 | g5100 | g5100.t6 | TSS | g5100.t6 | 6875089 | 6875089 |
| chr_2 | g5100 | g5100.t6 | TTS | g5100.t6 | NA | NA |
Sequences
>g5100.t6 Gene=g5100 Length=1453
ATGGAGGCATTAATTCCAGTCGTAAATAAGCTACAAGATGTATTTAACACAGTGGGATCG
GATTCAATTCAATTGCCACAGATTGTCGTATTAGGAAGTCAAGTAAGTTGAATTTTCATA
AAATCGATTTTTTTCGCTTGGGCTTCTTCAAAAAAAGTTCTCTCTTTGACTCATGCCTTT
CCAAAAATAATGAATGATGATGAAAATTACGCAATCTTTGAGCATTCATTTGCCGGCATT
AAAATACCAAATAGTTTAAAAATTCAATGAATAAATCATCATGTGATATAATTTAATTTT
TCAACAGAGCTCAGGCAAGTCATCAGTGCTCGAAAGTCTTGTTGGCCGTTCATTTCTTCC
TCGTGGAACTGGAATTGTTACTCGAAGACCACTTGTACTTCAACTCATTTATTGTCCTCT
TGATGATCGTGAACATAGATCAGCAGATAAAGGAACTGTGTCATTAGCAGAATGGGGCAA
ATTTCTTCATACGAAAAACAAAATTTTCACAGATTTCGATGAAATTCGTGCCGAGATTGA
AGCTGAAACAGATAGGATGGCAGGATCAAATAAAGGAATTTGTCCAGAACCCATAAATTT
GAAAATTTATTCTACTCGCGTTGTAAATCTTACTTTAGTCGATTTACCAGGAATTACAAA
AGTTCCTGTAGGAGATCAACCAGAAGATATTGAAAATCAAATCAGAGATTTACTTTTTAA
ATACATTGAAAATCCAAATTCCATCATTTTGGCTGTTACTGCTGCCAATACAGATATTGC
TACAAGTGAAAGTCTTAAAATGGCAAAAGATGTTGATCCGGATGGTAGAAGAACGTTAGC
TGTACTTACAAAATTAGATCTTATGGATGCTGGTACAGATGCAATCGATATGCTTTGTGG
ACGAGTTATTCCAGTTAAACTTGGCATCATTGGTGTAGTGAATCGATCACAACAAGACAT
AATGGATAATAAGACAATTGAAGAGCAATTGAAAGATGAAGCTGCATATTTGCAACGTAA
ATACCCTACTTTGGCTACACGCAATGGCACACCTTATTTGGCAAAAACACTCAATCGTCT
GTTAATGCATCACATTCGTGATTGTCTACCTGATCTCAAAACTCGTGTAAATGTAATGGC
TTCACAATTTCAATCTCTTCTAAATTCATATGGCGAAGATGTGACTGATAAGAGTCAAAC
TTTATTGCAAATCATTACAAAATTCGCAAGTGCATATTGTGCGACAATTGAAGGAACCGC
TCGAAATATTGAAACAACAGAATTATGTGGTGGCGCGAGAATTTGTTATATTTTCCATGA
GACATTTGGCAGAACATTAGATTCAATACATCCGCTTGCTGGGCTTTCAAAAATGGATAT
ATTGACTGCCATAAGAAATGCAACCGGACCACGACCAGCATTGTTTGTTCCCGAAGTGTC
GTTTGAATTATTG
>g5100.t6 Gene=g5100 Length=299
MAGSNKGICPEPINLKIYSTRVVNLTLVDLPGITKVPVGDQPEDIENQIRDLLFKYIENP
NSIILAVTAANTDIATSESLKMAKDVDPDGRRTLAVLTKLDLMDAGTDAIDMLCGRVIPV
KLGIIGVVNRSQQDIMDNKTIEEQLKDEAAYLQRKYPTLATRNGTPYLAKTLNRLLMHHI
RDCLPDLKTRVNVMASQFQSLLNSYGEDVTDKSQTLLQIITKFASAYCATIEGTARNIET
TELCGGARICYIFHETFGRTLDSIHPLAGLSKMDILTAIRNATGPRPALFVPEVSFELL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5100.t6 | CDD | cd08771 | DLP_1 | 1 | 185 | 0.000 |
| 10 | g5100.t6 | Gene3D | G3DSA:3.40.50.300 | - | 2 | 205 | 0.000 |
| 11 | g5100.t6 | Gene3D | G3DSA:1.20.120.1240 | - | 206 | 299 | 0.000 |
| 3 | g5100.t6 | PANTHER | PTHR11566:SF50 | SI:DKEY-32E23.4 | 1 | 299 | 0.000 |
| 4 | g5100.t6 | PANTHER | PTHR11566 | DYNAMIN | 1 | 299 | 0.000 |
| 8 | g5100.t6 | PRINTS | PR00195 | Dynamin signature | 19 | 36 | 0.000 |
| 7 | g5100.t6 | PRINTS | PR00195 | Dynamin signature | 69 | 87 | 0.000 |
| 6 | g5100.t6 | PRINTS | PR00195 | Dynamin signature | 88 | 104 | 0.000 |
| 5 | g5100.t6 | PRINTS | PR00195 | Dynamin signature | 111 | 130 | 0.000 |
| 2 | g5100.t6 | Pfam | PF00350 | Dynamin family | 2 | 99 | 0.000 |
| 1 | g5100.t6 | Pfam | PF01031 | Dynamin central region | 109 | 299 | 0.000 |
| 14 | g5100.t6 | ProSiteProfiles | PS51718 | Dynamin-type guanine nucleotide-binding (G) domain profile. | 1 | 185 | 34.937 |
| 13 | g5100.t6 | SMART | SM00053 | dynamin_3 | 1 | 138 | 0.000 |
| 9 | g5100.t6 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 192 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5100/g5100.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5100.t6.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005525 | GTP binding | MF |
| GO:0003924 | GTPase activity | MF |
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.
