General information for g1278.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Gelsolin, cytoplasmic.
Parent gene
- The parent gene g1278 is located on chr_3: 9416754..9424233 (- 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_3 | g1278 | g1278.t14 | isoform | g1278.t14 | 9412190 | 9414924 |
| chr_3 | g1278 | g1278.t14 | exon | g1278.t14.exon1 | 9412190 | 9412404 |
| chr_3 | g1278 | g1278.t14 | TTS | g1278.t14 | 9412202 | 9412202 |
| chr_3 | g1278 | g1278.t14 | cds | g1278.t14.CDS1 | 9412328 | 9412404 |
| chr_3 | g1278 | g1278.t14 | exon | g1278.t14.exon2 | 9412465 | 9412531 |
| chr_3 | g1278 | g1278.t14 | cds | g1278.t14.CDS2 | 9412465 | 9412531 |
| chr_3 | g1278 | g1278.t14 | exon | g1278.t14.exon3 | 9412593 | 9412676 |
| chr_3 | g1278 | g1278.t14 | cds | g1278.t14.CDS3 | 9412593 | 9412676 |
| chr_3 | g1278 | g1278.t14 | exon | g1278.t14.exon4 | 9412729 | 9414567 |
| chr_3 | g1278 | g1278.t14 | cds | g1278.t14.CDS4 | 9412729 | 9414564 |
| chr_3 | g1278 | g1278.t14 | exon | g1278.t14.exon5 | 9414850 | 9414924 |
| chr_3 | g1278 | g1278.t14 | TSS | g1278.t14 | NA | NA |
Sequences
>g1278.t14 Gene=g1278 Length=2280
AATTTTGAGCCTGTTCCTTATCCAAAGAAAGATTATGGCAAATTTTACACTGGCGATTCT
TATATCGTTTTGCATACGATGGAAAGTAAGAGTAGAGCACTTTCATGGGATGTTCATTTT
TGGCTTGGACTTGAAACAACGCAAGATGAGGCAGGTGCTGCAGCAATTTTTACTGTCCAA
CTTGATGATGCTCTTGGCGGAGCACCAATTCAACATCGTGAAGTTCAAGAACATGAGTCA
CAACTTTTTCTAAATTATTTCAAGAAAAATGGCATTCGTTATATGCCTGGTGGTGTTGCG
AGCGGTTTCAACAATGTTGAAATAAATGCCGCTGGTGAAAAACGTTTATTCCAAGTGAAA
GGAAAGAAAAATATTCGCGTGCGTCAAGTTGCTCTCTCGGTTAATTCAATGAATAAAGGC
GATTGCTTTATTCTCGATGCTGGTGATGAGATTTTTGTTTATGTCGGTGCTAAAGCAAAG
CGAGCAGAAAAAATTAAAGCAATTAGTGCTGCACATCAAATTCGTGATCAAGACCATAAT
GGACGCGCTTCAATTGAAATTATTGATGAATTCTCTAGTGAACACGATGTTCATAACTTT
TTCAAAGTTCTTGGTTCAGGCTCACCTGATGAAGTGACAGATGAAAGCGAAGATGATGAA
GCATTTGAAAGAAGTCAAGAAAGTGAAACAACTCTTTATACTGTCAGTGATGCATCAGGA
AAATTGACAATTGAACCAATCGCTCAAAAACCACTTAGACAAGAAATGTTGAATACTAAC
GATTGCTTTATTCTCGATACTGGTCATGGAATTTTCGTTTGGGTTGGAAAAGGTTCAACA
GATCAAGAGAAAAAGCAAGCCATTAATCATGCACAAGAATTTATTAAGAAAAAGAATTAT
CCAACATGGACTAAAGTATCGAGAATTGTTGAAGGTGCAGAAACAGCTCCGTTTAAGCAA
TACTTTATGTCATGGCGTGATAAGGGAACAACTTATTCTCGTCTTATTCGTATTGCAAAT
GATAATGACAGTGATACAGCAACTGATGAAGAATTTGATGCATCTGTTTTACATAAACTT
AAGAAAAGTGGTGGTCGTGCACTTGGCTTCATGCCAGATAATGGAGAAGGTGAAGCTGAA
GTCTTTAGAGTTGAAAATATGGAAATTGTGCCAATTCCAAAAGAAAATTATGGTTTCTTT
TTTGGTGGTGATTCTTATGTCATTAAATATGAATATAGAAATAAACGTGGTGGACATGGA
TATGTTATTTACTATTGGCAAGGGTTAACTTCATCAACTGATGAGAAAGCTGCATCAGCA
ATTCATGCTGCAAAAATGAGCAGTGAAATAGGAGTAAAATCAATGCAAGTTCGTGTTGTT
CAAGGCTTTGAATCACGTCATTTCTTAAAAGTTTTTAAAGGAAAAATTGTGGTTTTAACT
GGAGGAAAAGCCTCAGGCTTTAGAAATGTTCATGACCATGATTCTTATGATGTTGATGGC
ACAAGATTGTTTAGAGTTCGTGGAACATGTGCTGATGATGTTCGTGCTAATCAAGTTGAA
GAGGTTGCCAAGTCGCTTGCATCTGATGATGTTTTCATTTTGGAAACACCGACAAATACT
TTTGTTTGGTATGGAAAAGGTGCAAATGATTTTGAACAATCAATGGGATTGAGCGTTAGT
AAAACAATTTCTCCTGGTCGTGATGCAATTGTTATCTATGAAGGAGAAGAACCAAATGAA
TTTTGGGATGCATTAGGAGGAAAGGGCGATTATGATCATGAAATTGACCCACCTGGCGCA
CCATTCTTAGAACCACGTTTGTTCCATTGCTCTATTAAAACAAATGGTAAATTTAAAGTT
GAAGAAGTTTCACAGTTCGAACAAGATGATTTGGATCCTGATGATATCATGGTGCTCGAT
GGTGGTGATGAAGTTTATGTTTGGGTTGGAAAGGGATCAACTGATGAAGAAAAAGCAAAG
AGCATTGAAATGGCAAATGAATATATCCGTACTGATCCAACTGAAAGAAGTGAAGAAACT
GTAACAATTATTACTGTTCAACAAGGTGGAGAACCAAGAAGTTTCAAACGTTTATTCCCA
GCATGGAATGACCATTTGTGGGAGGTACGAGGATATGTATAAGACTATTTTACTGAGTGT
TTTTTTTATTATTAAATGATAATTTATTGCTTTATTTAATGAACAAATTTTATTAGTCAA
ATCTATCATGACTGTCTTTTTCTGTGCTTTATAAAATATTTTAAAAGAAATTGAATTGTC
>g1278.t14 Gene=g1278 Length=687
MESKSRALSWDVHFWLGLETTQDEAGAAAIFTVQLDDALGGAPIQHREVQEHESQLFLNY
FKKNGIRYMPGGVASGFNNVEINAAGEKRLFQVKGKKNIRVRQVALSVNSMNKGDCFILD
AGDEIFVYVGAKAKRAEKIKAISAAHQIRDQDHNGRASIEIIDEFSSEHDVHNFFKVLGS
GSPDEVTDESEDDEAFERSQESETTLYTVSDASGKLTIEPIAQKPLRQEMLNTNDCFILD
TGHGIFVWVGKGSTDQEKKQAINHAQEFIKKKNYPTWTKVSRIVEGAETAPFKQYFMSWR
DKGTTYSRLIRIANDNDSDTATDEEFDASVLHKLKKSGGRALGFMPDNGEGEAEVFRVEN
MEIVPIPKENYGFFFGGDSYVIKYEYRNKRGGHGYVIYYWQGLTSSTDEKAASAIHAAKM
SSEIGVKSMQVRVVQGFESRHFLKVFKGKIVVLTGGKASGFRNVHDHDSYDVDGTRLFRV
RGTCADDVRANQVEEVAKSLASDDVFILETPTNTFVWYGKGANDFEQSMGLSVSKTISPG
RDAIVIYEGEEPNEFWDALGGKGDYDHEIDPPGAPFLEPRLFHCSIKTNGKFKVEEVSQF
EQDDLDPDDIMVLDGGDEVYVWVGKGSTDEEKAKSIEMANEYIRTDPTERSEETVTIITV
QQGGEPRSFKRLFPAWNDHLWEVRGYV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 41 | g1278.t14 | CDD | cd11289 | gelsolin_S2_like | 87 | 179 | 0.0e+00 |
| 43 | g1278.t14 | CDD | cd11292 | gelsolin_S3_like | 201 | 296 | 0.0e+00 |
| 42 | g1278.t14 | CDD | cd11293 | gelsolin_S4_like | 345 | 446 | 0.0e+00 |
| 40 | g1278.t14 | CDD | cd11288 | gelsolin_S5_like | 473 | 564 | 0.0e+00 |
| 39 | g1278.t14 | CDD | cd11291 | gelsolin_S6_like | 578 | 677 | 0.0e+00 |
| 34 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 1 | 80 | 0.0e+00 |
| 36 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 81 | 196 | 0.0e+00 |
| 33 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 197 | 309 | 0.0e+00 |
| 38 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 344 | 476 | 0.0e+00 |
| 37 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 477 | 567 | 0.0e+00 |
| 35 | g1278.t14 | Gene3D | G3DSA:3.40.20.10 | Severin | 574 | 686 | 0.0e+00 |
| 7 | g1278.t14 | PANTHER | PTHR11977 | VILLIN | 5 | 325 | 0.0e+00 |
| 10 | g1278.t14 | PANTHER | PTHR11977:SF55 | GELSOLIN | 5 | 325 | 0.0e+00 |
| 9 | g1278.t14 | PANTHER | PTHR11977 | VILLIN | 353 | 537 | 0.0e+00 |
| 12 | g1278.t14 | PANTHER | PTHR11977:SF55 | GELSOLIN | 353 | 537 | 0.0e+00 |
| 8 | g1278.t14 | PANTHER | PTHR11977 | VILLIN | 548 | 682 | 0.0e+00 |
| 11 | g1278.t14 | PANTHER | PTHR11977:SF55 | GELSOLIN | 548 | 682 | 0.0e+00 |
| 14 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 278 | 299 | 0.0e+00 |
| 19 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 370 | 386 | 0.0e+00 |
| 16 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 396 | 414 | 0.0e+00 |
| 13 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 429 | 449 | 0.0e+00 |
| 17 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 488 | 508 | 0.0e+00 |
| 15 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 548 | 567 | 0.0e+00 |
| 18 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 602 | 624 | 0.0e+00 |
| 20 | g1278.t14 | PRINTS | PR00597 | Gelsolin family signature | 631 | 650 | 0.0e+00 |
| 2 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 11 | 58 | 1.0e-07 |
| 5 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 98 | 163 | 0.0e+00 |
| 1 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 224 | 292 | 0.0e+00 |
| 6 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 361 | 443 | 0.0e+00 |
| 4 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 493 | 556 | 7.0e-05 |
| 3 | g1278.t14 | Pfam | PF00626 | Gelsolin repeat | 592 | 669 | 0.0e+00 |
| 29 | g1278.t14 | SMART | SM00262 | VILL_6 | 1 | 64 | 3.6e-01 |
| 30 | g1278.t14 | SMART | SM00262 | VILL_6 | 86 | 181 | 0.0e+00 |
| 28 | g1278.t14 | SMART | SM00262 | VILL_6 | 205 | 299 | 0.0e+00 |
| 27 | g1278.t14 | SMART | SM00262 | VILL_6 | 351 | 449 | 0.0e+00 |
| 31 | g1278.t14 | SMART | SM00262 | VILL_6 | 475 | 562 | 0.0e+00 |
| 32 | g1278.t14 | SMART | SM00262 | VILL_6 | 579 | 676 | 0.0e+00 |
| 26 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 8 | 98 | 0.0e+00 |
| 25 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 82 | 166 | 0.0e+00 |
| 24 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 198 | 302 | 0.0e+00 |
| 21 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 344 | 483 | 0.0e+00 |
| 22 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 466 | 566 | 0.0e+00 |
| 23 | g1278.t14 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 551 | 682 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0051015 | actin filament binding | 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.
