General information for g15760.t2
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.t2 | TSS | g15760.t2 | 6684945 | 6684945 |
| chr_4 | g15760 | g15760.t2 | isoform | g15760.t2 | 6685164 | 6689719 |
| chr_4 | g15760 | g15760.t2 | exon | g15760.t2.exon1 | 6685164 | 6685611 |
| chr_4 | g15760 | g15760.t2 | cds | g15760.t2.CDS1 | 6685164 | 6685611 |
| chr_4 | g15760 | g15760.t2 | exon | g15760.t2.exon2 | 6685678 | 6685827 |
| chr_4 | g15760 | g15760.t2 | cds | g15760.t2.CDS2 | 6685678 | 6685827 |
| chr_4 | g15760 | g15760.t2 | exon | g15760.t2.exon3 | 6685970 | 6688130 |
| chr_4 | g15760 | g15760.t2 | cds | g15760.t2.CDS3 | 6685970 | 6688130 |
| chr_4 | g15760 | g15760.t2 | exon | g15760.t2.exon4 | 6688378 | 6688959 |
| chr_4 | g15760 | g15760.t2 | cds | g15760.t2.CDS4 | 6688378 | 6688959 |
| chr_4 | g15760 | g15760.t2 | exon | g15760.t2.exon5 | 6689020 | 6689719 |
| chr_4 | g15760 | g15760.t2 | cds | g15760.t2.CDS5 | 6689020 | 6689719 |
| chr_4 | g15760 | g15760.t2 | TTS | g15760.t2 | NA | NA |
Sequences
>g15760.t2 Gene=g15760 Length=4041
ATGTCTTGCAATATTTATTATGAAAATTGCAAGGTCAATGTTGAATGGAAGCATCATGTC
TTAAAAATTTTCGACATTGGAACAGCAAATTTAATTTTGACATTGAAAAATCAGCTAATT
TTTATCAAACGCACTGATAACAGCAGCAACTTGATTAATTTACGAGATAACGTGATAGAC
GCATCGTATAGTTATCCACTCTTCTACATAGTCGATAATAATGGACACGTCTTTAAAACA
AACATTGAACAAATTAGTGAAAATCTTTGGGATGAGATTTTTGTAGAGCAAAATATAAAA
CAAATTTGCGGAAATGGTGATGGAGTGCTAATGATTAGCGAAAATTATGAACTTATTGGA
ATGGGAGATTTTGAAAATGTTTTATGTTCAGTTGAACCAAAGAAGGTTGATTGCTTTTCT
AATATTAACGCCCTTCAAGTTGCAATGGGGGATAATTTTGCTCTTGTTCTTGTTACACAA
CAATTACCAAATGGAAATAATAATTCAATAATTGATAAAAATTTTATGCAAGAAACCAGA
GAAATTGGAAGAGATTTATTAAAAACCCAAGTTTGGTCATTTGGTTCAATAAATAAAGGA
GCTGGAGATCATGCAAAGCGAAAAGACCATGCTGTGATAGTAAAATTAGTTGATATTGGT
GTTTATACAATTTCCTGTGGTAGTCATCATGCAGCTGCTTTGACACTTGATGGTCGACTT
TTTTTATGGGGCTTTAATAATCATCAACAAATTTCAATTGACACATCAATTCAAGATTTA
AGTTCACCAATTGAATTTCGAACAGAGATCAATGGAAAAATGTCAAAAAATGTTCTTGCA
GTTACAACATCAAGTTGCAGCACTGTTATACTCTTCAATGATTTATCATTCAAAGTTTTA
GGCAAAACTGGTGTTTCACAAAATGAAAATGAAGAATTTGCGAGTAGTCTCAAATATGAG
CACGATGCAGGAAATGTTGAAGATAATTTTGGCATTTGCAATGTGCCATACATTATAAGT
CATGGAAAAGTGCTGCTAATTAATAGGAAAAATATTTCCATGTTTCTTCTGACTTATATG
AATGATGAACAACGTTACAATCGAATCATGGTTAATGCTTATCAAAAATATATGATTGGT
CTAAAAATGCATGACGATGATTCTTTCAAATTAGTCGAAAGTTTTGAAAATCTTCTCTAC
ATTGCATTGAGAAATTTAAAAATGATTTTTGACTTGCTCAAGAGTGACAGTGAACAAAAA
CTTGATAGTGCAATTGTAAATATAAATTTTACTGAAGTCATTCGTGAATATCATCGCTAT
TTAAAAAATCTCTGTGATATAATTTCATTTTATTCCTATGATCATTATGAAAAGAAAATT
GATCGTAAAATTATAAAAATTGTGCTTGAAAAGCCATTTTCAATGTTGGAAATTTATGAA
AAATTATTGGATTTGATTTATGATTTGCATCTTTACAACAATAATCCAAACATTTCAATT
CATGATCATGAAATTGAAGAATTAAAAAGACAAACAGTTGAAAGGAAAAAAATTCTTGAA
GATTTTAGAAAAATTGTTGTTCCACAAAAAATTAAAGAAGCAAGTGAAACTTTTACATTT
TGGCAATCATTAAATGATTCTACAATAAAATCAGAATTGCATCAAAAGGAACGAAGATTT
GTGATGGATTCAAATGTTGTTCAATTAAAACTTCATGATCGTGCTTCACTTTTTGGTAAA
CAAAGATTTTTACTTTTCAATGATTATTTGGCTTATACATTATCAAGAAATGAATTTATT
CCAATTCATCTTGTATGGATGCAAGCTTTTACAACACAAAATTCAAATAAATATTCATTT
AAAATTATAACACCTGAAAATACAATCAAAGTTTATACATTAACATCTCAAGATAAAAGT
GAATGGCAGAAAAACATTCGAGAATGCATTTGGCGAGCTTTAGGTATTAAACCAACTGTA
ATTAATCAAGGATTACCTGTGAGTCGTTATGGAAGTTATAAATTTTCTGAAAGAAATGCA
AAATATCCAAGTTATGAAATTGAAGGCAAATGGTTTGAAGGAAAATTTTATGATCTCTGC
CACATTCGAGTGCCATCAATTAGTCGTCATTTCAAATGTCGTATAAGTGTTGCAGGTGAA
ATGAATGGTTATGGAATGATTGAAGATCCAAATTTTAAATATCATGGTGAATTTTATCAA
GGGAAATTACATGGCTATGGCGTTTGGAAATCAAAAATTTCACCAATTTTTTATCAAGGA
TATTTTAAAAATGATAAATTTCATGGCTATGGAGTGCTTTCAGTAAACGATGTGACATAT
TATGGTGAATTTGTGAATAATGTAAAAAATGGCTATGGATTTGAAGATGACATCATAAGT
GGAACAAAATACATCGGAATGTGGCAAGATGGAAAACGCACGGGAACTGGAATTTTAATA
AATATGGATGGTTCATATTTTGAAGGAATTTTTGCAAATAATAATTTATCTGGTGATGGT
CTTGCAATTTTTCCAAATGGTTCTTATTATATAGGAGAATTAAATGTCGATGGTGCAAGT
GGAAATGGCTCATTTCATATTCCAGATACAGAAATTGTTGAAGAAATGATGGAATTGGAT
GATAATAATCTTAAAATGAGAGGAAATGTACTAAAAGGAATTCTTTATGGCACTTGGGAT
AAAATTACTATTTCTAATGGTACAATGTCGATGGGTGAAATTTTTCTTAAAATTCCTAAC
TCATCAAATTATCTAAAAATCAAACCAGAAAGAAAATGGTCAGTATTTTTTGAGAATTGG
TACGATGAAGTTTTTGGAACACAAAATGTAGATAAATTAACTACAACTGATCTATGGTAC
AGAATTTCAAGTTTCATAACAAGAAAAAGGAAATTTGAAAGCGACATGTCAAAAAATTTT
ACACTTGTTAATGAAGAAAGTTCAAAAGATGTTGATTTTAATGAAATGCAATATAGTTTA
CCTGAAAGTCAACAAACTGACAACATGTCACTTCCTGCAATATCAAGATCAAATTCTGAA
TTATATTTAAGAGATTCATCGAGTGATTTTGACACAGCATCATTAAAAACTTTAAGTGAT
TATTCAATAAGTTCTATAGCAGCAGCTTCAAAAAAGCATTTAATAAATGACCATTTTGAC
TTTGTACCTTCATTTTACAATAGCAATTTTAGCACACATGAATCAATAGAAGAATTGAAA
AATTATTTAAATGAGAGCATTTGTGATATTCATCATCCGTTCCATTTACTCATAAATACT
TTAAGACAAGGGTTTTGTGCATGTTATGGCAGTTGGCGAAGCAAACCAACATCAATTATA
TCAAAAATAGCAATAACAGAATGGATTTCATTAATGAAAAGAATTTACAACATTTTTCGA
CTTCTTTTTCCTGGATTGCCAACATGTGATGATTCAATAAACAACAATAGTGATGATGAA
TCCTCAAATGATGAATGTAAACTTTTATCACCTTTAAACTTCATGCATCAAATTTTATTA
GATGAAGAAATTTATTCTTGTTTTTTCCTTCTTTATGCAAGCAAAAATTCACGACAAGAT
GAACTTTATGCTCAAAGATTATTGACATGTGAAAAGAAAACAAATGAAGAATTGCGTCAA
TTATTAAAAATTGAACCAAATTTAATTCAATTGTTGGAAGATGAAGAATTTTATCGTGCA
ATTGAACATTTTAAGAAACTAAGTCATCAATATTGTCCATCAAAAATGCTGCAAATTATC
AAAGATACTTTCGAAATGATAAGCAATTGTGCAAATAAATTGTCAGAGAAAAAAGATCTT
CTATCAGCTGATAATCTTTTATCAATCACAATTTATCTTATTGTTAAAGCCTCGATTAAT
CATCTTGGCGCTGAATTATCACTACTAACTGACCTGATGGAAAATGATATTGAAAAATTA
ATTAATATGGAACAGTATATTTATACGACTGTTAAAATTGGCTATTTACATTCTTTATCA
TCTAAATTCTTTCATAATTAA
>g15760.t2 Gene=g15760 Length=1346
MSCNIYYENCKVNVEWKHHVLKIFDIGTANLILTLKNQLIFIKRTDNSSNLINLRDNVID
ASYSYPLFYIVDNNGHVFKTNIEQISENLWDEIFVEQNIKQICGNGDGVLMISENYELIG
MGDFENVLCSVEPKKVDCFSNINALQVAMGDNFALVLVTQQLPNGNNNSIIDKNFMQETR
EIGRDLLKTQVWSFGSINKGAGDHAKRKDHAVIVKLVDIGVYTISCGSHHAAALTLDGRL
FLWGFNNHQQISIDTSIQDLSSPIEFRTEINGKMSKNVLAVTTSSCSTVILFNDLSFKVL
GKTGVSQNENEEFASSLKYEHDAGNVEDNFGICNVPYIISHGKVLLINRKNISMFLLTYM
NDEQRYNRIMVNAYQKYMIGLKMHDDDSFKLVESFENLLYIALRNLKMIFDLLKSDSEQK
LDSAIVNINFTEVIREYHRYLKNLCDIISFYSYDHYEKKIDRKIIKIVLEKPFSMLEIYE
KLLDLIYDLHLYNNNPNISIHDHEIEELKRQTVERKKILEDFRKIVVPQKIKEASETFTF
WQSLNDSTIKSELHQKERRFVMDSNVVQLKLHDRASLFGKQRFLLFNDYLAYTLSRNEFI
PIHLVWMQAFTTQNSNKYSFKIITPENTIKVYTLTSQDKSEWQKNIRECIWRALGIKPTV
INQGLPVSRYGSYKFSERNAKYPSYEIEGKWFEGKFYDLCHIRVPSISRHFKCRISVAGE
MNGYGMIEDPNFKYHGEFYQGKLHGYGVWKSKISPIFYQGYFKNDKFHGYGVLSVNDVTY
YGEFVNNVKNGYGFEDDIISGTKYIGMWQDGKRTGTGILINMDGSYFEGIFANNNLSGDG
LAIFPNGSYYIGELNVDGASGNGSFHIPDTEIVEEMMELDDNNLKMRGNVLKGILYGTWD
KITISNGTMSMGEIFLKIPNSSNYLKIKPERKWSVFFENWYDEVFGTQNVDKLTTTDLWY
RISSFITRKRKFESDMSKNFTLVNEESSKDVDFNEMQYSLPESQQTDNMSLPAISRSNSE
LYLRDSSSDFDTASLKTLSDYSISSIAAASKKHLINDHFDFVPSFYNSNFSTHESIEELK
NYLNESICDIHHPFHLLINTLRQGFCACYGSWRSKPTSIISKIAITEWISLMKRIYNIFR
LLFPGLPTCDDSINNNSDDESSNDECKLLSPLNFMHQILLDEEIYSCFFLLYASKNSRQD
ELYAQRLLTCEKKTNEELRQLLKIEPNLIQLLEDEEFYRAIEHFKKLSHQYCPSKMLQII
KDTFEMISNCANKLSEKKDLLSADNLLSITIYLIVKASINHLGAELSLLTDLMENDIEKL
INMEQYIYTTVKIGYLHSLSSKFFHN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g15760.t2 | Gene3D | G3DSA:2.130.10.30 | - | 72 | 336 | 5.9E-17 |
| 19 | g15760.t2 | Gene3D | G3DSA:2.30.29.30 | - | 540 | 677 | 4.6E-11 |
| 18 | g15760.t2 | Gene3D | G3DSA:2.20.110.10 | - | 781 | 884 | 3.8E-11 |
| 20 | g15760.t2 | Gene3D | G3DSA:1.20.1050.80 | - | 1197 | 1343 | 5.5E-12 |
| 6 | g15760.t2 | PANTHER | PTHR46089 | ALSIN HOMOLOG | 390 | 1341 | 2.0E-126 |
| 3 | g15760.t2 | Pfam | PF02493 | MORN repeat | 734 | 749 | 0.34 |
| 5 | g15760.t2 | Pfam | PF02493 | MORN repeat | 758 | 773 | 0.0032 |
| 2 | g15760.t2 | Pfam | PF02493 | MORN repeat | 780 | 794 | 1.0 |
| 4 | g15760.t2 | Pfam | PF02493 | MORN repeat | 804 | 825 | 0.097 |
| 1 | g15760.t2 | Pfam | PF02204 | Vacuolar sorting protein 9 (VPS9) domain | 1238 | 1333 | 1.5E-14 |
| 16 | g15760.t2 | ProSitePatterns | PS00626 | Regulator of chromosome condensation (RCC1) signature 2. | 224 | 234 | - |
| 21 | g15760.t2 | ProSiteProfiles | PS50012 | Regulator of chromosome condensation (RCC1) repeat profile. | 238 | 294 | 9.58 |
| 22 | g15760.t2 | ProSiteProfiles | PS51205 | VPS9 domain profile. | 1208 | 1346 | 18.397 |
| 15 | g15760.t2 | SMART | SM00698 | morn | 732 | 751 | 11.0 |
| 11 | g15760.t2 | SMART | SM00698 | morn | 756 | 777 | 0.87 |
| 13 | g15760.t2 | SMART | SM00698 | morn | 778 | 796 | 23.0 |
| 12 | g15760.t2 | SMART | SM00698 | morn | 802 | 823 | 0.11 |
| 14 | g15760.t2 | SMART | SM00698 | morn | 848 | 869 | 43.0 |
| 10 | g15760.t2 | SUPERFAMILY | SSF50985 | RCC1/BLIP-II | 56 | 312 | 8.24E-22 |
| 8 | g15760.t2 | SUPERFAMILY | SSF50729 | PH domain-like | 558 | 654 | 1.29E-8 |
| 9 | g15760.t2 | SUPERFAMILY | SSF82185 | Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain | 718 | 834 | 3.14E-18 |
| 7 | g15760.t2 | SUPERFAMILY | SSF109993 | VPS9 domain | 1089 | 1331 | 5.89E-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.
