General information for g10632.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Toll-like receptor Tollo.
Parent gene
- The parent gene g10632 is located on chr_1: 10872550..10874052 (- 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 | g10632 | g10632.t1 | isoform | g10632.t1 | 10872550 | 10874052 |
| chr_1 | g10632 | g10632.t1 | exon | g10632.t1.exon1 | 10872550 | 10874052 |
| chr_1 | g10632 | g10632.t1 | cds | g10632.t1.CDS1 | 10872550 | 10874052 |
| chr_1 | g10632 | g10632.t1 | TSS | g10632.t1 | 10874654 | 10874654 |
| chr_1 | g10632 | g10632.t1 | TTS | g10632.t1 | NA | NA |
Sequences
>g10632.t1 Gene=g10632 Length=1503
ATGGAAAAATGGATAACAATTTATTTTGCACTGCATTGCTTGTGTTATGTTAATAGCACT
AATAAATTATTAGATAGCTTATATGATTCGTCGCATCAGCAACAACAGCAGCAACAGAAA
GTTGATTGCACATGGAGACAAAGACAAAATTCAGTGCAAAATGCAGTCGATGATAGTAGT
CGATATTTATCATGTAGAATGAAGACCATCAGTGGATTAGATGGCCTAATAAGAAATTTA
ACAAACTTCAATAGTCAAAATCAAGTAGTGAATGCTTTGAAATTAGAATGTAGTGATGTG
CTGTTTGCTGAAAGTTCTCTACTTGTTGAGAATAATAATAATGGAGATGCAGCAGTTGAT
TATGGTGCCTTCAATAAGCATTTACATGAGCTAACATTACAATATTGTAAAATTAAATAT
GTCCCAGCCATGACATTCAGACCACTTAAAAATCTCAAAAGTCTCACATTGCAGACACAT
AATGCCGATTGGTCAACAATCAATCTTGAATTGCATGCAGAAACTTTCACTGGATTGAGT
GAATTACGAAGACTTAATCTTGCTGATAATAACATTTGGTCATTACCAAATGGAATTTTT
TGTCCATTATTTTCACTCAAATATTTAAATTTGAGCAAAAATCACATCAATGATGTGTCA
CAAGTTGGATTTAGTGCACAAAGTAACACAAATGATGATAATGACCTGTTACCATCATCA
ACTGCTCCAACAATTTCAACATGCAATACAGGCATTGAACAAGTTGATTTATCATACAAC
AATCTCATTAGCATCCCAAATAATTGCTTCACTGCACTCCGTTCACTTAATTTCCTACAT
TTGGATAGCAATCAATTGACAATTCTTGATGATAATTCATTCAAAGGATTAGATAAGTTG
CAATTTTTAAATCTAACTAATAATCGACTTATCACACTGCCACCAGAATTATTTGAAAAG
ACACGTGACTTGAAGCGACTTTATATTGGCAATAATTCACTAGCAGTGCTTGCACCAGGA
TTATTTGAGAATTTAACTCATTTGGAAGTGCTGGATCTTTCATATAATGAACTCACATCA
TCATGGATCAATCGTGATACTTTCATTGGTCTCAATCGACTTATTGTGCTTAAATTGAAT
AACAATAAATTAACAAAAGTCGATCAATTTGTATTTCGTGAACTCTATGAATTGCAAGCA
TTAAATTTAGAATCAAATCAAATTGAAATGATTGCACAAAATGCATTTATTGATTTAAGA
AATTTACATCAATTACTTTTGTCAAATAATCAATTAAAAGTGATCGAATCGAAGCATTTT
GCTGGACTTTATTCATTAAATCAGCTCATCTTAGAATCAAATGAAATTTCAAATATTCAT
CCAACTGCATTTGATCATCTCATCAATTCTGTCGTTGATTTAAGTTTAAATGATAACAAA
TTAAAAAGAATTCCTGATTCAATAAAGAAAATTGAGAAATTTACAAGCTTTAGATTTGGG
TAA
>g10632.t1 Gene=g10632 Length=500
MEKWITIYFALHCLCYVNSTNKLLDSLYDSSHQQQQQQQKVDCTWRQRQNSVQNAVDDSS
RYLSCRMKTISGLDGLIRNLTNFNSQNQVVNALKLECSDVLFAESSLLVENNNNGDAAVD
YGAFNKHLHELTLQYCKIKYVPAMTFRPLKNLKSLTLQTHNADWSTINLELHAETFTGLS
ELRRLNLADNNIWSLPNGIFCPLFSLKYLNLSKNHINDVSQVGFSAQSNTNDDNDLLPSS
TAPTISTCNTGIEQVDLSYNNLISIPNNCFTALRSLNFLHLDSNQLTILDDNSFKGLDKL
QFLNLTNNRLITLPPELFEKTRDLKRLYIGNNSLAVLAPGLFENLTHLEVLDLSYNELTS
SWINRDTFIGLNRLIVLKLNNNKLTKVDQFVFRELYELQALNLESNQIEMIAQNAFIDLR
NLHQLLLSNNQLKVIESKHFAGLYSLNQLILESNEISNIHPTAFDHLINSVVDLSLNDNK
LKRIPDSIKKIEKFTSFRFG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g10632.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 12 | 226 | 0.000e+00 |
| 25 | g10632.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 227 | 364 | 0.000e+00 |
| 26 | g10632.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 365 | 499 | 0.000e+00 |
| 5 | g10632.t1 | PANTHER | PTHR45836:SF8 | TOLL-LIKE RECEPTOR 6 | 54 | 496 | 0.000e+00 |
| 6 | g10632.t1 | PANTHER | PTHR45836 | SLIT HOMOLOG | 54 | 496 | 0.000e+00 |
| 7 | g10632.t1 | PRINTS | PR00019 | Leucine-rich repeat signature | 206 | 219 | 6.900e-05 |
| 8 | g10632.t1 | PRINTS | PR00019 | Leucine-rich repeat signature | 345 | 358 | 6.900e-05 |
| 4 | g10632.t1 | Pfam | PF13855 | Leucine rich repeat | 170 | 216 | 0.000e+00 |
| 3 | g10632.t1 | Pfam | PF13855 | Leucine rich repeat | 253 | 310 | 0.000e+00 |
| 1 | g10632.t1 | Pfam | PF13855 | Leucine rich repeat | 323 | 382 | 0.000e+00 |
| 2 | g10632.t1 | Pfam | PF13855 | Leucine rich repeat | 420 | 481 | 0.000e+00 |
| 31 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 127 | 148 | 5.271e+00 |
| 35 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 181 | 202 | 8.405e+00 |
| 38 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 205 | 226 | 7.689e+00 |
| 32 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 251 | 272 | 6.156e+00 |
| 28 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 275 | 296 | 6.257e+00 |
| 34 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 299 | 320 | 7.673e+00 |
| 33 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 323 | 344 | 5.194e+00 |
| 36 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 347 | 360 | 5.956e+00 |
| 27 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 373 | 394 | 6.156e+00 |
| 37 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 397 | 418 | 6.480e+00 |
| 30 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 421 | 442 | 7.073e+00 |
| 39 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 445 | 466 | 6.118e+00 |
| 29 | g10632.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 470 | 491 | 5.841e+00 |
| 19 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 126 | 148 | 1.800e+02 |
| 21 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 179 | 202 | 4.000e-04 |
| 20 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 203 | 226 | 7.300e+00 |
| 22 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 250 | 272 | 1.400e+02 |
| 23 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 273 | 296 | 1.500e-02 |
| 15 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 297 | 320 | 7.000e-03 |
| 16 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 321 | 344 | 2.400e+01 |
| 13 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 345 | 370 | 5.400e+00 |
| 12 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 371 | 394 | 9.100e+00 |
| 14 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 395 | 418 | 2.500e-01 |
| 18 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 419 | 442 | 9.000e-01 |
| 17 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 443 | 466 | 6.000e-02 |
| 11 | g10632.t1 | SMART | SM00369 | LRR_typ_2 | 468 | 490 | 3.600e+02 |
| 9 | g10632.t1 | SUPERFAMILY | SSF52058 | L domain-like | 127 | 225 | 0.000e+00 |
| 10 | g10632.t1 | SUPERFAMILY | SSF52058 | L domain-like | 247 | 487 | 0.000e+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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K24609 (leucine-rich repeats and immunoglobulin-like domains protein 2)
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.
