General information for g1278.t16
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.t16 | TTS | g1278.t16 | 9412202 | 9412202 |
| chr_3 | g1278 | g1278.t16 | isoform | g1278.t16 | 9412729 | 9416754 |
| chr_3 | g1278 | g1278.t16 | exon | g1278.t16.exon1 | 9412729 | 9414567 |
| chr_3 | g1278 | g1278.t16 | cds | g1278.t16.CDS1 | 9412729 | 9414567 |
| chr_3 | g1278 | g1278.t16 | exon | g1278.t16.exon2 | 9414850 | 9414924 |
| chr_3 | g1278 | g1278.t16 | cds | g1278.t16.CDS2 | 9414850 | 9414924 |
| chr_3 | g1278 | g1278.t16 | exon | g1278.t16.exon3 | 9416695 | 9416754 |
| chr_3 | g1278 | g1278.t16 | cds | g1278.t16.CDS3 | 9416695 | 9416754 |
| chr_3 | g1278 | g1278.t16 | TSS | g1278.t16 | 9416877 | 9416877 |
Sequences
>g1278.t16 Gene=g1278 Length=1974
ATGCATGTAGCATTTGAAAAAGCTGGTCAGAAAAAAGGCCTCGAAATTTGGAGAATTGAA
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
GAAGAAGTTTCACAGTTCGAACAAGATGATTTGGATCCTGATGATATCATGGTG
>g1278.t16 Gene=g1278 Length=658
MHVAFEKAGQKKGLEIWRIENFEPVPYPKKDYGKFYTGDSYIVLHTMESKSRALSWDVHF
WLGLETTQDEAGAAAIFTVQLDDALGGAPIQHREVQEHESQLFLNYFKKNGIRYMPGGVA
SGFNNVEINAAGEKRLFQVKGKKNIRVRQVALSVNSMNKGDCFILDAGDEIFVYVGAKAK
RAEKIKAISAAHQIRDQDHNGRASIEIIDEFSSEHDVHNFFKVLGSGSPDEVTDESEDDE
AFERSQESETTLYTVSDASGKLTIEPIAQKPLRQEMLNTNDCFILDTGHGIFVWVGKGST
DQEKKQAINHAQEFIKKKNYPTWTKVSRIVEGAETAPFKQYFMSWRDKGTTYSRLIRIAN
DNDSDTATDEEFDASVLHKLKKSGGRALGFMPDNGEGEAEVFRVENMEIVPIPKENYGFF
FGGDSYVIKYEYRNKRGGHGYVIYYWQGLTSSTDEKAASAIHAAKMSSEIGVKSMQVRVV
QGFESRHFLKVFKGKIVVLTGGKASGFRNVHDHDSYDVDGTRLFRVRGTCADDVRANQVE
EVAKSLASDDVFILETPTNTFVWYGKGANDFEQSMGLSVSKTISPGRDAIVIYEGEEPNE
FWDALGGKGDYDHEIDPPGAPFLEPRLFHCSIKTNGKFKVEEVSQFEQDDLDPDDIMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 40 | g1278.t16 | CDD | cd11290 | gelsolin_S1_like | 5 | 118 | 0.0e+00 |
| 37 | g1278.t16 | CDD | cd11289 | gelsolin_S2_like | 133 | 225 | 0.0e+00 |
| 39 | g1278.t16 | CDD | cd11292 | gelsolin_S3_like | 247 | 342 | 0.0e+00 |
| 38 | g1278.t16 | CDD | cd11293 | gelsolin_S4_like | 391 | 492 | 0.0e+00 |
| 36 | g1278.t16 | CDD | cd11288 | gelsolin_S5_like | 519 | 610 | 0.0e+00 |
| 33 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 1 | 131 | 0.0e+00 |
| 35 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 132 | 237 | 0.0e+00 |
| 31 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 243 | 355 | 0.0e+00 |
| 32 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 390 | 522 | 0.0e+00 |
| 34 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 523 | 613 | 0.0e+00 |
| 30 | g1278.t16 | Gene3D | G3DSA:3.40.20.10 | Severin | 620 | 658 | 2.0e-07 |
| 8 | g1278.t16 | PANTHER | PTHR11977 | VILLIN | 1 | 371 | 0.0e+00 |
| 11 | g1278.t16 | PANTHER | PTHR11977:SF55 | GELSOLIN | 1 | 371 | 0.0e+00 |
| 7 | g1278.t16 | PANTHER | PTHR11977 | VILLIN | 400 | 583 | 0.0e+00 |
| 10 | g1278.t16 | PANTHER | PTHR11977:SF55 | GELSOLIN | 400 | 583 | 0.0e+00 |
| 6 | g1278.t16 | PANTHER | PTHR11977 | VILLIN | 594 | 658 | 0.0e+00 |
| 9 | g1278.t16 | PANTHER | PTHR11977:SF55 | GELSOLIN | 594 | 658 | 0.0e+00 |
| 17 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 324 | 345 | 0.0e+00 |
| 13 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 416 | 432 | 0.0e+00 |
| 16 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 442 | 460 | 0.0e+00 |
| 14 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 475 | 495 | 0.0e+00 |
| 15 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 534 | 554 | 0.0e+00 |
| 18 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 594 | 613 | 0.0e+00 |
| 12 | g1278.t16 | PRINTS | PR00597 | Gelsolin family signature | 648 | 658 | 0.0e+00 |
| 2 | g1278.t16 | Pfam | PF00626 | Gelsolin repeat | 22 | 104 | 0.0e+00 |
| 4 | g1278.t16 | Pfam | PF00626 | Gelsolin repeat | 144 | 209 | 0.0e+00 |
| 3 | g1278.t16 | Pfam | PF00626 | Gelsolin repeat | 270 | 338 | 0.0e+00 |
| 5 | g1278.t16 | Pfam | PF00626 | Gelsolin repeat | 407 | 489 | 0.0e+00 |
| 1 | g1278.t16 | Pfam | PF00626 | Gelsolin repeat | 539 | 602 | 6.6e-05 |
| 27 | g1278.t16 | SMART | SM00262 | VILL_6 | 12 | 110 | 0.0e+00 |
| 29 | g1278.t16 | SMART | SM00262 | VILL_6 | 132 | 227 | 0.0e+00 |
| 25 | g1278.t16 | SMART | SM00262 | VILL_6 | 251 | 345 | 0.0e+00 |
| 26 | g1278.t16 | SMART | SM00262 | VILL_6 | 397 | 495 | 0.0e+00 |
| 28 | g1278.t16 | SMART | SM00262 | VILL_6 | 521 | 608 | 0.0e+00 |
| 21 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 5 | 144 | 0.0e+00 |
| 20 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 128 | 212 | 0.0e+00 |
| 23 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 244 | 348 | 0.0e+00 |
| 22 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 390 | 529 | 0.0e+00 |
| 24 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 512 | 612 | 0.0e+00 |
| 19 | g1278.t16 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 597 | 658 | 3.0e-07 |
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 transcript has been annotated with K05768 (gelsolin)
Pathway
- This transcript belongs to the following pathways
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.
