General information for g15760.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alsin-like protein.
Parent gene
- The parent gene g15760 is located on chr_4: 6685164..6689719 (+ 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_4 | g15760 | g15760.t1 | TSS | g15760.t1 | 6684945 | 6684945 |
| chr_4 | g15760 | g15760.t1 | isoform | g15760.t1 | 6685164 | 6689719 |
| chr_4 | g15760 | g15760.t1 | exon | g15760.t1.exon1 | 6685164 | 6685611 |
| chr_4 | g15760 | g15760.t1 | cds | g15760.t1.CDS1 | 6685164 | 6685611 |
| chr_4 | g15760 | g15760.t1 | exon | g15760.t1.exon2 | 6685678 | 6685827 |
| chr_4 | g15760 | g15760.t1 | cds | g15760.t1.CDS2 | 6685678 | 6685827 |
| chr_4 | g15760 | g15760.t1 | exon | g15760.t1.exon3 | 6685961 | 6688130 |
| chr_4 | g15760 | g15760.t1 | cds | g15760.t1.CDS3 | 6685961 | 6688130 |
| chr_4 | g15760 | g15760.t1 | exon | g15760.t1.exon4 | 6688378 | 6688959 |
| chr_4 | g15760 | g15760.t1 | cds | g15760.t1.CDS4 | 6688378 | 6688959 |
| chr_4 | g15760 | g15760.t1 | exon | g15760.t1.exon5 | 6689020 | 6689719 |
| chr_4 | g15760 | g15760.t1 | cds | g15760.t1.CDS5 | 6689020 | 6689719 |
| chr_4 | g15760 | g15760.t1 | TTS | g15760.t1 | NA | NA |
Sequences
>g15760.t1 Gene=g15760 Length=4050
ATGTCTTGCAATATTTATTATGAAAATTGCAAGGTCAATGTTGAATGGAAGCATCATGTC
TTAAAAATTTTCGACATTGGAACAGCAAATTTAATTTTGACATTGAAAAATCAGCTAATT
TTTATCAAACGCACTGATAACAGCAGCAACTTGATTAATTTACGAGATAACGTGATAGAC
GCATCGTATAGTTATCCACTCTTCTACATAGTCGATAATAATGGACACGTCTTTAAAACA
AACATTGAACAAATTAGTGAAAATCTTTGGGATGAGATTTTTGTAGAGCAAAATATAAAA
CAAATTTGCGGAAATGGTGATGGAGTGCTAATGATTAGCGAAAATTATGAACTTATTGGA
ATGGGAGATTTTGAAAATGTTTTATGTTCAGTTGAACCAAAGAAGGTTGATTGCTTTTCT
AATATTAACGCCCTTCAAGTTGCAATGGGGGATAATTTTGCTCTTGTTCTTGTTACACAA
CAATTACCAAATGGAAATAATAATTCAATAATTGATAAAAATTTTATGCAAGAAACCAGA
GAAATTGGAAGAGATTTATTAAAAACCCAAGTTTGGTCATTTGGTTCAATAAATAAAGGT
CTTTTAGGAGCTGGAGATCATGCAAAGCGAAAAGACCATGCTGTGATAGTAAAATTAGTT
GATATTGGTGTTTATACAATTTCCTGTGGTAGTCATCATGCAGCTGCTTTGACACTTGAT
GGTCGACTTTTTTTATGGGGCTTTAATAATCATCAACAAATTTCAATTGACACATCAATT
CAAGATTTAAGTTCACCAATTGAATTTCGAACAGAGATCAATGGAAAAATGTCAAAAAAT
GTTCTTGCAGTTACAACATCAAGTTGCAGCACTGTTATACTCTTCAATGATTTATCATTC
AAAGTTTTAGGCAAAACTGGTGTTTCACAAAATGAAAATGAAGAATTTGCGAGTAGTCTC
AAATATGAGCACGATGCAGGAAATGTTGAAGATAATTTTGGCATTTGCAATGTGCCATAC
ATTATAAGTCATGGAAAAGTGCTGCTAATTAATAGGAAAAATATTTCCATGTTTCTTCTG
ACTTATATGAATGATGAACAACGTTACAATCGAATCATGGTTAATGCTTATCAAAAATAT
ATGATTGGTCTAAAAATGCATGACGATGATTCTTTCAAATTAGTCGAAAGTTTTGAAAAT
CTTCTCTACATTGCATTGAGAAATTTAAAAATGATTTTTGACTTGCTCAAGAGTGACAGT
GAACAAAAACTTGATAGTGCAATTGTAAATATAAATTTTACTGAAGTCATTCGTGAATAT
CATCGCTATTTAAAAAATCTCTGTGATATAATTTCATTTTATTCCTATGATCATTATGAA
AAGAAAATTGATCGTAAAATTATAAAAATTGTGCTTGAAAAGCCATTTTCAATGTTGGAA
ATTTATGAAAAATTATTGGATTTGATTTATGATTTGCATCTTTACAACAATAATCCAAAC
ATTTCAATTCATGATCATGAAATTGAAGAATTAAAAAGACAAACAGTTGAAAGGAAAAAA
ATTCTTGAAGATTTTAGAAAAATTGTTGTTCCACAAAAAATTAAAGAAGCAAGTGAAACT
TTTACATTTTGGCAATCATTAAATGATTCTACAATAAAATCAGAATTGCATCAAAAGGAA
CGAAGATTTGTGATGGATTCAAATGTTGTTCAATTAAAACTTCATGATCGTGCTTCACTT
TTTGGTAAACAAAGATTTTTACTTTTCAATGATTATTTGGCTTATACATTATCAAGAAAT
GAATTTATTCCAATTCATCTTGTATGGATGCAAGCTTTTACAACACAAAATTCAAATAAA
TATTCATTTAAAATTATAACACCTGAAAATACAATCAAAGTTTATACATTAACATCTCAA
GATAAAAGTGAATGGCAGAAAAACATTCGAGAATGCATTTGGCGAGCTTTAGGTATTAAA
CCAACTGTAATTAATCAAGGATTACCTGTGAGTCGTTATGGAAGTTATAAATTTTCTGAA
AGAAATGCAAAATATCCAAGTTATGAAATTGAAGGCAAATGGTTTGAAGGAAAATTTTAT
GATCTCTGCCACATTCGAGTGCCATCAATTAGTCGTCATTTCAAATGTCGTATAAGTGTT
GCAGGTGAAATGAATGGTTATGGAATGATTGAAGATCCAAATTTTAAATATCATGGTGAA
TTTTATCAAGGGAAATTACATGGCTATGGCGTTTGGAAATCAAAAATTTCACCAATTTTT
TATCAAGGATATTTTAAAAATGATAAATTTCATGGCTATGGAGTGCTTTCAGTAAACGAT
GTGACATATTATGGTGAATTTGTGAATAATGTAAAAAATGGCTATGGATTTGAAGATGAC
ATCATAAGTGGAACAAAATACATCGGAATGTGGCAAGATGGAAAACGCACGGGAACTGGA
ATTTTAATAAATATGGATGGTTCATATTTTGAAGGAATTTTTGCAAATAATAATTTATCT
GGTGATGGTCTTGCAATTTTTCCAAATGGTTCTTATTATATAGGAGAATTAAATGTCGAT
GGTGCAAGTGGAAATGGCTCATTTCATATTCCAGATACAGAAATTGTTGAAGAAATGATG
GAATTGGATGATAATAATCTTAAAATGAGAGGAAATGTACTAAAAGGAATTCTTTATGGC
ACTTGGGATAAAATTACTATTTCTAATGGTACAATGTCGATGGGTGAAATTTTTCTTAAA
ATTCCTAACTCATCAAATTATCTAAAAATCAAACCAGAAAGAAAATGGTCAGTATTTTTT
GAGAATTGGTACGATGAAGTTTTTGGAACACAAAATGTAGATAAATTAACTACAACTGAT
CTATGGTACAGAATTTCAAGTTTCATAACAAGAAAAAGGAAATTTGAAAGCGACATGTCA
AAAAATTTTACACTTGTTAATGAAGAAAGTTCAAAAGATGTTGATTTTAATGAAATGCAA
TATAGTTTACCTGAAAGTCAACAAACTGACAACATGTCACTTCCTGCAATATCAAGATCA
AATTCTGAATTATATTTAAGAGATTCATCGAGTGATTTTGACACAGCATCATTAAAAACT
TTAAGTGATTATTCAATAAGTTCTATAGCAGCAGCTTCAAAAAAGCATTTAATAAATGAC
CATTTTGACTTTGTACCTTCATTTTACAATAGCAATTTTAGCACACATGAATCAATAGAA
GAATTGAAAAATTATTTAAATGAGAGCATTTGTGATATTCATCATCCGTTCCATTTACTC
ATAAATACTTTAAGACAAGGGTTTTGTGCATGTTATGGCAGTTGGCGAAGCAAACCAACA
TCAATTATATCAAAAATAGCAATAACAGAATGGATTTCATTAATGAAAAGAATTTACAAC
ATTTTTCGACTTCTTTTTCCTGGATTGCCAACATGTGATGATTCAATAAACAACAATAGT
GATGATGAATCCTCAAATGATGAATGTAAACTTTTATCACCTTTAAACTTCATGCATCAA
ATTTTATTAGATGAAGAAATTTATTCTTGTTTTTTCCTTCTTTATGCAAGCAAAAATTCA
CGACAAGATGAACTTTATGCTCAAAGATTATTGACATGTGAAAAGAAAACAAATGAAGAA
TTGCGTCAATTATTAAAAATTGAACCAAATTTAATTCAATTGTTGGAAGATGAAGAATTT
TATCGTGCAATTGAACATTTTAAGAAACTAAGTCATCAATATTGTCCATCAAAAATGCTG
CAAATTATCAAAGATACTTTCGAAATGATAAGCAATTGTGCAAATAAATTGTCAGAGAAA
AAAGATCTTCTATCAGCTGATAATCTTTTATCAATCACAATTTATCTTATTGTTAAAGCC
TCGATTAATCATCTTGGCGCTGAATTATCACTACTAACTGACCTGATGGAAAATGATATT
GAAAAATTAATTAATATGGAACAGTATATTTATACGACTGTTAAAATTGGCTATTTACAT
TCTTTATCATCTAAATTCTTTCATAATTAA
>g15760.t1 Gene=g15760 Length=1349
MSCNIYYENCKVNVEWKHHVLKIFDIGTANLILTLKNQLIFIKRTDNSSNLINLRDNVID
ASYSYPLFYIVDNNGHVFKTNIEQISENLWDEIFVEQNIKQICGNGDGVLMISENYELIG
MGDFENVLCSVEPKKVDCFSNINALQVAMGDNFALVLVTQQLPNGNNNSIIDKNFMQETR
EIGRDLLKTQVWSFGSINKGLLGAGDHAKRKDHAVIVKLVDIGVYTISCGSHHAAALTLD
GRLFLWGFNNHQQISIDTSIQDLSSPIEFRTEINGKMSKNVLAVTTSSCSTVILFNDLSF
KVLGKTGVSQNENEEFASSLKYEHDAGNVEDNFGICNVPYIISHGKVLLINRKNISMFLL
TYMNDEQRYNRIMVNAYQKYMIGLKMHDDDSFKLVESFENLLYIALRNLKMIFDLLKSDS
EQKLDSAIVNINFTEVIREYHRYLKNLCDIISFYSYDHYEKKIDRKIIKIVLEKPFSMLE
IYEKLLDLIYDLHLYNNNPNISIHDHEIEELKRQTVERKKILEDFRKIVVPQKIKEASET
FTFWQSLNDSTIKSELHQKERRFVMDSNVVQLKLHDRASLFGKQRFLLFNDYLAYTLSRN
EFIPIHLVWMQAFTTQNSNKYSFKIITPENTIKVYTLTSQDKSEWQKNIRECIWRALGIK
PTVINQGLPVSRYGSYKFSERNAKYPSYEIEGKWFEGKFYDLCHIRVPSISRHFKCRISV
AGEMNGYGMIEDPNFKYHGEFYQGKLHGYGVWKSKISPIFYQGYFKNDKFHGYGVLSVND
VTYYGEFVNNVKNGYGFEDDIISGTKYIGMWQDGKRTGTGILINMDGSYFEGIFANNNLS
GDGLAIFPNGSYYIGELNVDGASGNGSFHIPDTEIVEEMMELDDNNLKMRGNVLKGILYG
TWDKITISNGTMSMGEIFLKIPNSSNYLKIKPERKWSVFFENWYDEVFGTQNVDKLTTTD
LWYRISSFITRKRKFESDMSKNFTLVNEESSKDVDFNEMQYSLPESQQTDNMSLPAISRS
NSELYLRDSSSDFDTASLKTLSDYSISSIAAASKKHLINDHFDFVPSFYNSNFSTHESIE
ELKNYLNESICDIHHPFHLLINTLRQGFCACYGSWRSKPTSIISKIAITEWISLMKRIYN
IFRLLFPGLPTCDDSINNNSDDESSNDECKLLSPLNFMHQILLDEEIYSCFFLLYASKNS
RQDELYAQRLLTCEKKTNEELRQLLKIEPNLIQLLEDEEFYRAIEHFKKLSHQYCPSKML
QIIKDTFEMISNCANKLSEKKDLLSADNLLSITIYLIVKASINHLGAELSLLTDLMENDI
EKLINMEQYIYTTVKIGYLHSLSSKFFHN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g15760.t1 | Gene3D | G3DSA:2.130.10.30 | - | 72 | 339 | 5.5E-20 |
| 19 | g15760.t1 | Gene3D | G3DSA:2.30.29.30 | - | 543 | 680 | 4.6E-11 |
| 18 | g15760.t1 | Gene3D | G3DSA:2.20.110.10 | - | 784 | 887 | 3.8E-11 |
| 20 | g15760.t1 | Gene3D | G3DSA:1.20.1050.80 | - | 1200 | 1346 | 5.5E-12 |
| 6 | g15760.t1 | PANTHER | PTHR46089 | ALSIN HOMOLOG | 393 | 1344 | 2.0E-126 |
| 4 | g15760.t1 | Pfam | PF02493 | MORN repeat | 737 | 752 | 0.34 |
| 5 | g15760.t1 | Pfam | PF02493 | MORN repeat | 761 | 776 | 0.0033 |
| 3 | g15760.t1 | Pfam | PF02493 | MORN repeat | 783 | 797 | 1.0 |
| 2 | g15760.t1 | Pfam | PF02493 | MORN repeat | 807 | 828 | 0.097 |
| 1 | g15760.t1 | Pfam | PF02204 | Vacuolar sorting protein 9 (VPS9) domain | 1241 | 1336 | 1.5E-14 |
| 16 | g15760.t1 | ProSitePatterns | PS00626 | Regulator of chromosome condensation (RCC1) signature 2. | 227 | 237 | - |
| 21 | g15760.t1 | ProSiteProfiles | PS50012 | Regulator of chromosome condensation (RCC1) repeat profile. | 189 | 240 | 11.348 |
| 22 | g15760.t1 | ProSiteProfiles | PS50012 | Regulator of chromosome condensation (RCC1) repeat profile. | 241 | 297 | 9.58 |
| 23 | g15760.t1 | ProSiteProfiles | PS51205 | VPS9 domain profile. | 1211 | 1349 | 18.397 |
| 12 | g15760.t1 | SMART | SM00698 | morn | 735 | 754 | 11.0 |
| 11 | g15760.t1 | SMART | SM00698 | morn | 759 | 780 | 0.87 |
| 15 | g15760.t1 | SMART | SM00698 | morn | 781 | 799 | 23.0 |
| 13 | g15760.t1 | SMART | SM00698 | morn | 805 | 826 | 0.11 |
| 14 | g15760.t1 | SMART | SM00698 | morn | 851 | 872 | 43.0 |
| 10 | g15760.t1 | SUPERFAMILY | SSF50985 | RCC1/BLIP-II | 56 | 314 | 1.44E-23 |
| 8 | g15760.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 561 | 657 | 1.32E-8 |
| 9 | g15760.t1 | SUPERFAMILY | SSF82185 | Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain | 721 | 837 | 3.14E-18 |
| 7 | g15760.t1 | SUPERFAMILY | SSF109993 | VPS9 domain | 1092 | 1334 | 6.02E-19 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K04575 (amyotrophic lateral sclerosis 2 protein)
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.
