General information for g11049.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Netrin receptor unc-5.
Parent gene
- The parent gene g11049 is located on chr_1: 13697345..13700588 (- 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 | g11049 | g11049.t2 | TTS | g11049.t2 | 13696422 | 13696422 |
| chr_1 | g11049 | g11049.t2 | isoform | g11049.t2 | 13697345 | 13700588 |
| chr_1 | g11049 | g11049.t2 | exon | g11049.t2.exon1 | 13697345 | 13698330 |
| chr_1 | g11049 | g11049.t2 | cds | g11049.t2.CDS1 | 13697345 | 13698330 |
| chr_1 | g11049 | g11049.t2 | exon | g11049.t2.exon2 | 13698414 | 13698740 |
| chr_1 | g11049 | g11049.t2 | cds | g11049.t2.CDS2 | 13698414 | 13698740 |
| chr_1 | g11049 | g11049.t2 | exon | g11049.t2.exon3 | 13698921 | 13699484 |
| chr_1 | g11049 | g11049.t2 | cds | g11049.t2.CDS3 | 13698921 | 13699484 |
| chr_1 | g11049 | g11049.t2 | exon | g11049.t2.exon4 | 13699583 | 13699796 |
| chr_1 | g11049 | g11049.t2 | cds | g11049.t2.CDS4 | 13699583 | 13699796 |
| chr_1 | g11049 | g11049.t2 | exon | g11049.t2.exon5 | 13700157 | 13700588 |
| chr_1 | g11049 | g11049.t2 | cds | g11049.t2.CDS5 | 13700157 | 13700588 |
| chr_1 | g11049 | g11049.t2 | TSS | g11049.t2 | NA | NA |
Sequences
>g11049.t2 Gene=g11049 Length=2523
ATGAAACGCCGGAGAGTCCTTAATTTTCAAGTGGCGCTCTATACGATCTTCTTCATGTGT
TCTTCATTAAGCCAATCGATCAGTGTAAATAATAAACATGCTGTACATACGAATCATAAA
CAGCAAAAGTTGGCGGTAGCAGGAACAGCAACAAATCTAAATAGTCAATTGGCGCCTCTA
CCGGATGCTCATACATTGGACGACGAAGACGACGATGAAGAGGATGACAAGAGTGATGAC
GAATACTTATTTTCGAATGAACATGAATTTGGTTCGAGTGGTTCTAGTGACATCATAGGA
AATCCTGATAGTGAAGACTTGGACAAATTCCAAGATAATGGCTTACCATTTTTTCTAAAA
CAACCCGAGAATGAATACATTGTGCGGAAGAAACCTGCAATATTAAAGTGCAGTACAAAA
CATGCACTAAAGCTGACTTTTAAATGTTTGGGTAATACAGAGCCTCCTACAGTACTAGAT
CAGCATGTTGATCCGCAAACTGGTGTTCATTGGCTCGAGGCGACTGCGACAGTCGATCTA
AAACTTTATGAATCGTGGTATGGGCGAAGACAATTCCAATGCTTCTGCATTGCGTGGAGT
CCGCGTGGTGATGCGAAAAGTCGAGCGGCAACTGTCGAAGCAGCAAAGCTGGGACAGAAT
TTTATAATGGCACCGCCGAGTGCTCGTATTGAGCCTGGATATCAATTAGAACTTAAATGT
ACACCGCCAGATTCACTGCCAAAAGCTGTTATTTCGTGGCAAAAGAATGGTCAAGACCTC
ATGTCATCTTCATCAATCACAGTCACACAAGATGGCAGTCTTATTATTCACTCAACGAAA
GTGCTTGACACTGGCAACTATACATGTTCAGCTGAGAATATTGTTGGAAAGAGGACATCA
AATGTCGTTCCCGTGTTGGTACGAAGTGAAAAAAGATGGAGTGAATGGAGCACTTGCAAT
GTTGACTGTAAAAAGACAAGACAGAGAAATTGCAATGCAAGATCACCGGATGATTGTCAG
GGCAAGGAAGTGGAAACGATTGAGTGTCAAGACGGCAATTGTCAACAGAAACAGATACAA
CCAAGATCTGATCGCATTGTTTTTAGTTCATTAATCATACTCTCAGTGCTGTGTGTTGTT
CTGGCTGCTTTATTTGCTCATTCGAGAAGAAAGAAACCAGAAATTCCCGATTATATCGTG
ACAGACGATGAAATATTAGAAATTCAACCAAAGAATTATGAAGGCGAAAAACGCTATAGG
CAACAATTAGAGCCAACGAAAAAGTCTCCATATGCATACGAGTACAATACAATGGAGCCC
AATTACAATCCACAACCAGTCTATCCACCACCATCTATTCTTAAGCAACAACAGCGGCTA
CCAACACCAAATATTCATGAGAATCACTATCATGAGCCGCAACTTGCCATCACATATTCA
GTTCCTTTTGATAAGATAAGTAGCAAAGTGTCAAACTCGAATACATCATCAACGCGTAAG
CTACAATCAGACACAATTTCAAGTAGTACCGAATCATTGAACTCTACACAAGTCATTGAA
ATGGAGTCATCATCAACGACGTCACTTTTAAATGATAAGAATCAACCGAAATCGAATATG
ATTGAACAAATGGTGACATCAAATGGTGGTTGGTTGGAATTGGAGCATCTCGATACGAGT
CTCTCGATACCAGAACTAACATTTGAGCGTACTCGAAAATATAACATTTTCCTAACAGTT
TTGCACAACGAATTTATTAAGAATCAAATTACATGTAACTTTAACGATAATTCAACGCAC
TTGAGCTCAATTATTTATTGTGGCCCATCGGATGTACTTCTTAATAAGCCAGTTATCCTC
AAATTTCCCCACTGCGCAAACCATTTTGAAAATTGGAATATTTCACTACTGCACAACAGC
TGTGCGAGTGATAGTCAAAAAGCATACATTGATATGGATGATGAAAAGGACAAATGGAAG
AGAATTGCATCGACAAGTAATGATGTAGTTAATCCATTAGCCTTTATACAGTTAGATTCT
AAAAATGCATTCATTATTTCGCGTGTACTCGGCAAGCTGCTACTTGTTGGCGAAGCAAAA
TCGCCCGAAGTAGCTGTCGAAAAGCGAATGAAAATAGCTCTTTTTGGACCAAAGCATAAG
ATGCCAGCGGGTGATTTTAATGTAAGAGTATACATTGTAGAAGATTATCGAAGTAGCATC
GATTATTGTACAATTATTGAGAAGAATTTAGGAAATGATTTGCTAATGCTTAGCAAGGAC
TTTCTATTTAAAAACAACAAAGAAGATTTGTGGGTGCAACTTGTGTGCTCTGGCGGTTGG
AATAGCCGATTTGAATCTCAAAAAATTCCCTTCTCACATTTATGGAAGAATTCTTATTTA
TTACATTGTGATTTTCTACTCGAACGAAGTAACGACGCCGTTAATAAGTTAAATATGGAA
ATATTTGTGAAGCAGAAGCATGGTGATGATATTTTTCTCAATAATCTTCTTCTTTACACA
TAA
>g11049.t2 Gene=g11049 Length=840
MKRRRVLNFQVALYTIFFMCSSLSQSISVNNKHAVHTNHKQQKLAVAGTATNLNSQLAPL
PDAHTLDDEDDDEEDDKSDDEYLFSNEHEFGSSGSSDIIGNPDSEDLDKFQDNGLPFFLK
QPENEYIVRKKPAILKCSTKHALKLTFKCLGNTEPPTVLDQHVDPQTGVHWLEATATVDL
KLYESWYGRRQFQCFCIAWSPRGDAKSRAATVEAAKLGQNFIMAPPSARIEPGYQLELKC
TPPDSLPKAVISWQKNGQDLMSSSSITVTQDGSLIIHSTKVLDTGNYTCSAENIVGKRTS
NVVPVLVRSEKRWSEWSTCNVDCKKTRQRNCNARSPDDCQGKEVETIECQDGNCQQKQIQ
PRSDRIVFSSLIILSVLCVVLAALFAHSRRKKPEIPDYIVTDDEILEIQPKNYEGEKRYR
QQLEPTKKSPYAYEYNTMEPNYNPQPVYPPPSILKQQQRLPTPNIHENHYHEPQLAITYS
VPFDKISSKVSNSNTSSTRKLQSDTISSSTESLNSTQVIEMESSSTTSLLNDKNQPKSNM
IEQMVTSNGGWLELEHLDTSLSIPELTFERTRKYNIFLTVLHNEFIKNQITCNFNDNSTH
LSSIIYCGPSDVLLNKPVILKFPHCANHFENWNISLLHNSCASDSQKAYIDMDDEKDKWK
RIASTSNDVVNPLAFIQLDSKNAFIISRVLGKLLLVGEAKSPEVAVEKRMKIALFGPKHK
MPAGDFNVRVYIVEDYRSSIDYCTIIEKNLGNDLLMLSKDFLFKNNKEDLWVQLVCSGGW
NSRFESQKIPFSHLWKNSYLLHCDFLLERSNDAVNKLNMEIFVKQKHGDDIFLNNLLLYT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11049.t2 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 112 | 219 | 7.8E-21 |
| 11 | g11049.t2 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 220 | 315 | 6.1E-18 |
| 13 | g11049.t2 | Gene3D | G3DSA:2.60.220.30 | - | 522 | 662 | 2.1E-20 |
| 27 | g11049.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 490 | 530 | - |
| 5 | g11049.t2 | PANTHER | PTHR12582:SF47 | NETRIN RECEPTOR UNC-5 | 132 | 307 | 3.8E-113 |
| 7 | g11049.t2 | PANTHER | PTHR12582 | NETRIN RECEPTOR UNC5 | 132 | 307 | 3.8E-113 |
| 4 | g11049.t2 | PANTHER | PTHR12582:SF47 | NETRIN RECEPTOR UNC-5 | 312 | 827 | 3.8E-113 |
| 6 | g11049.t2 | PANTHER | PTHR12582 | NETRIN RECEPTOR UNC5 | 312 | 827 | 3.8E-113 |
| 2 | g11049.t2 | Pfam | PF07679 | Immunoglobulin I-set domain | 221 | 302 | 1.1E-12 |
| 1 | g11049.t2 | Pfam | PF00791 | ZU5 domain | 542 | 638 | 3.6E-20 |
| 3 | g11049.t2 | Pfam | PF17217 | UPA domain | 708 | 832 | 3.0E-20 |
| 16 | g11049.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 17 | g11049.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 18 | g11049.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 18 | - |
| 20 | g11049.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 26 | - |
| 15 | g11049.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 365 | - |
| 19 | g11049.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 386 | - |
| 14 | g11049.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 387 | 840 | - |
| 29 | g11049.t2 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 219 | 300 | 11.678 |
| 28 | g11049.t2 | ProSiteProfiles | PS50092 | Thrombospondin type-1 (TSP1) repeat profile. | 307 | 355 | 9.088 |
| 30 | g11049.t2 | ProSiteProfiles | PS51145 | ZU5 domain profile. | 539 | 690 | 14.646 |
| 23 | g11049.t2 | SMART | SM00409 | IG_3c | 225 | 308 | 5.7E-8 |
| 25 | g11049.t2 | SMART | SM00408 | igc2_5 | 231 | 296 | 1.9E-7 |
| 24 | g11049.t2 | SMART | SM00209 | TSP1_2 | 310 | 355 | 0.002 |
| 26 | g11049.t2 | SMART | SM00218 | zu_1 | 537 | 643 | 2.5E-6 |
| 8 | g11049.t2 | SUPERFAMILY | SSF48726 | Immunoglobulin | 220 | 303 | 6.06E-18 |
| 10 | g11049.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 26 | - |
| 21 | g11049.t2 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
| 9 | g11049.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 34 | - |
| 22 | g11049.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 388 | - |
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:0005042 | netrin receptor activity | MF |
| GO:0038007 | netrin-activated signaling pathway | BP |
| GO:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K07521 (netrin receptor unc-5)
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.
