General information for g9563.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Insulin-like growth factor-binding protein complex acid labile subunit.
Parent gene
- The parent gene g9563 is located on chr_1: 4065288..4066169 (+ 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_1 | g9563 | g9563.t3 | TSS | g9563.t3 | 4062330 | 4062330 |
| chr_1 | g9563 | g9563.t3 | isoform | g9563.t3 | 4062348 | 4066169 |
| chr_1 | g9563 | g9563.t3 | exon | g9563.t3.exon1 | 4062348 | 4062411 |
| chr_1 | g9563 | g9563.t3 | exon | g9563.t3.exon2 | 4064640 | 4066169 |
| chr_1 | g9563 | g9563.t3 | cds | g9563.t3.CDS1 | 4064640 | 4066169 |
| chr_1 | g9563 | g9563.t3 | TTS | g9563.t3 | 4066306 | 4066306 |
Sequences
>g9563.t3 Gene=g9563 Length=1594
AAGGTATTGTGAAAGTGAAAAAGTATAATTAAATTGCTGAAAGGTTTCACATCATATTAT
TAAGATGTCGACAGAAGAAAACGATCAAACAGTAGAGACTGATAATCAGCCTAATGAAGA
GTCTCAAGAAAAACAGTGGCCAACGAGACTTCCAAACGGTGAATTACCTGATGGCTATTA
CATTGAACTAGAAGGAACAAAAATATCAAGTGAAGATGAAATTGAATATAATATTAATGT
ACCATATTGTGAAAGAAAAGATGAAAATATTTTACTTTTAAGTTCTACAAGAACTTACGG
TTATAAACCTTCTATCGTAAAAATGATACCACATTCAATATTGTCAAGATATAAAAATTT
AAAATGGCTAGAACTGGTACATGTTCAATTAGAAAAGTTAACAGAAAATATGTTTGAGTG
TGTGCCTAATTTAACACAGATTGAGTTAAGTTATAATAAATTGCAAAAGTTGCAAAAAGG
AGTATTCAGAAATTGTCCAAAATTAGATCATTTATGGATATCAAATAATGAGATTAGTGA
AATTGATGAAGATGTATTTATTGGATGTGAAAACCTTTATTGGTTAATTTTAAATCATAA
CAAAATTACTAGAATCACAAGCAAACATTTTGAACCTGTAAGAAAAAGTTTATATTTCTT
TTATATCACAGATAATTTGATATCAGAGTTAGATTCGAATTTATTTCATCACATGGAAAT
TCTTAATGAAGTGCGAATGAGTAACAATCAAATTAAAAATTTACCTAAAAATTTCTTTGT
TAATGCTCCTAACTTATATTCAATTGATTTAGATGGAAATTTAATAGAAGTTATTGACCC
AGAGTTTTATAATGGACAAACAAAAATAAGCGCGATTGATTTTTCAAAGAATAAAATTCG
TGAAATTCCTTCAGAATTATTTAAACAACAAACTAATATTAGTCATATTGATTTTAGTTA
CAATTTAATTGAGCACTTAGATCCACAGATATTTTCATGTCTACCTTCACTTTCTCAAGT
CAACTTGAAGTTCAATCAGTTGACAGAAATTGATGAAAATTTATTCAAGAATAATCCAAA
AATATGGAAATTGAATTTTAGGGGTAATAAAATAAAGAAAATACACCCTAAAGCATTTGA
AAATCTATCAGAACTTTACTCGCTTTCACTTGGAGATAATTGTATTGAAGAGTTACCTCA
AGGTCTCTTTAGAAATATGAAATCTTTAATGAATTTATTTCTTGAAAATAATAATATCAA
TAAGATTCATCCAGAAGTTTTCATGCCTTTTAAAGATAAAGGTATTTATCTTAATTTAAA
CAACAACAAAATAGAAATTTTTGAAAAAGAAACATTTCAAAATTTGAATAAAATGAGAGC
ATTTGGTTTTCGAAACAATCCTGGTAGTGAAATGATAGATGAGCAATTTGTAAAAATTTT
TAATTGTGGAATTCAATTTCTTAAATTTAATTACTTCACTATTTTTGATCGTTTTGATGA
ATACTTAAGCCAAGAACTTATAAACAAAAAAGTTAAGAATGAAGATATTTTAAGTGAAGA
TGATGAAGAATATGGATTTGAAATACTTGATTGA
>g9563.t3 Gene=g9563 Length=509
MSTEENDQTVETDNQPNEESQEKQWPTRLPNGELPDGYYIELEGTKISSEDEIEYNINVP
YCERKDENILLLSSTRTYGYKPSIVKMIPHSILSRYKNLKWLELVHVQLEKLTENMFECV
PNLTQIELSYNKLQKLQKGVFRNCPKLDHLWISNNEISEIDEDVFIGCENLYWLILNHNK
ITRITSKHFEPVRKSLYFFYITDNLISELDSNLFHHMEILNEVRMSNNQIKNLPKNFFVN
APNLYSIDLDGNLIEVIDPEFYNGQTKISAIDFSKNKIREIPSELFKQQTNISHIDFSYN
LIEHLDPQIFSCLPSLSQVNLKFNQLTEIDENLFKNNPKIWKLNFRGNKIKKIHPKAFEN
LSELYSLSLGDNCIEELPQGLFRNMKSLMNLFLENNNINKIHPEVFMPFKDKGIYLNLNN
NKIEIFEKETFQNLNKMRAFGFRNNPGSEMIDEQFVKIFNCGIQFLKFNYFTIFDRFDEY
LSQELINKKVKNEDILSEDDEEYGFEILD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 28 | g9563.t3 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 81 | 195 | 2.9E-25 |
| 26 | g9563.t3 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 196 | 343 | 9.2E-32 |
| 27 | g9563.t3 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 344 | 484 | 8.2E-21 |
| 24 | g9563.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 25 | g9563.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 28 | - |
| 4 | g9563.t3 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 86 | 191 | 1.5E-74 |
| 7 | g9563.t3 | PANTHER | PTHR45617 | - | 86 | 191 | 1.5E-74 |
| 5 | g9563.t3 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 200 | 344 | 1.5E-74 |
| 8 | g9563.t3 | PANTHER | PTHR45617 | - | 200 | 344 | 1.5E-74 |
| 6 | g9563.t3 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 271 | 441 | 1.5E-74 |
| 9 | g9563.t3 | PANTHER | PTHR45617 | - | 271 | 441 | 1.5E-74 |
| 1 | g9563.t3 | Pfam | PF13855 | Leucine rich repeat | 121 | 181 | 2.7E-15 |
| 3 | g9563.t3 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 208 | 339 | 3.9E-13 |
| 2 | g9563.t3 | Pfam | PF13855 | Leucine rich repeat | 363 | 408 | 6.1E-10 |
| 30 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 98 | 119 | 5.286 |
| 39 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 122 | 143 | 6.072 |
| 41 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 146 | 167 | 7.543 |
| 40 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 170 | 191 | 7.25 |
| 35 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 195 | 216 | 5.009 |
| 33 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 219 | 240 | 5.456 |
| 29 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 243 | 264 | 5.933 |
| 34 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 267 | 288 | 5.771 |
| 42 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 291 | 312 | 5.756 |
| 32 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 315 | 336 | 5.956 |
| 38 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 339 | 360 | 5.64 |
| 37 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 363 | 384 | 6.418 |
| 36 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 387 | 408 | 7.327 |
| 31 | g9563.t3 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 412 | 433 | 5.186 |
| 21 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 120 | 143 | 0.3 |
| 15 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 144 | 167 | 27.0 |
| 18 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 168 | 191 | 160.0 |
| 22 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 194 | 216 | 390.0 |
| 20 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 217 | 240 | 15.0 |
| 19 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 242 | 264 | 190.0 |
| 23 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 266 | 288 | 260.0 |
| 13 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 290 | 312 | 69.0 |
| 17 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 313 | 336 | 0.057 |
| 12 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 338 | 360 | 130.0 |
| 16 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 361 | 384 | 0.0061 |
| 11 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 385 | 408 | 4.3 |
| 14 | g9563.t3 | SMART | SM00369 | LRR_typ_2 | 415 | 433 | 270.0 |
| 10 | g9563.t3 | SUPERFAMILY | SSF52058 | L domain-like | 73 | 406 | 2.55E-51 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K06260 (platelet glycoprotein V)
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.
