General information for g6627.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein numb.
Parent gene
- The parent gene g6627 is located on chr_2: 17857871..17859788 (- 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_2 | g6627 | g6627.t1 | TTS | g6627.t1 | 17857646 | 17857646 |
| chr_2 | g6627 | g6627.t1 | isoform | g6627.t1 | 17857871 | 17859788 |
| chr_2 | g6627 | g6627.t1 | exon | g6627.t1.exon1 | 17857871 | 17858152 |
| chr_2 | g6627 | g6627.t1 | cds | g6627.t1.CDS1 | 17857871 | 17858152 |
| chr_2 | g6627 | g6627.t1 | exon | g6627.t1.exon2 | 17858213 | 17859271 |
| chr_2 | g6627 | g6627.t1 | cds | g6627.t1.CDS2 | 17858213 | 17859271 |
| chr_2 | g6627 | g6627.t1 | exon | g6627.t1.exon3 | 17859342 | 17859593 |
| chr_2 | g6627 | g6627.t1 | cds | g6627.t1.CDS3 | 17859342 | 17859593 |
| chr_2 | g6627 | g6627.t1 | exon | g6627.t1.exon4 | 17859714 | 17859788 |
| chr_2 | g6627 | g6627.t1 | cds | g6627.t1.CDS4 | 17859714 | 17859788 |
| chr_2 | g6627 | g6627.t1 | TSS | g6627.t1 | NA | NA |
Sequences
>g6627.t1 Gene=g6627 Length=1668
ATGGGTAATTCTTCATCACATCAGCCACTTGAACGTGGCTTCACAAGAGGTACCTTTGGT
GATATAAAAAATGTGAAATCTTCATCATTTAGATCAAGTAAACGATTTTCGCCAAAGAAA
ATGGATCGCCTTCGTAAGTCATTCCGTGACTCGTTTCGTCGTCGTAAAGATAGAGTTCCA
GAAGCATCAAAACCGCATTTATGGCAAACAGATGAGCAAGAAGTTCGATCTGCTACCTGT
GTGTTTCCTGTTAAATATCTTGGTTGTGTTGAAGTTTTTGAGTCTCGAGGAATGCAAGTG
TGTGAGGAAGCTATTAAAGTTTTACGAAATTCTCGAAGGAGACCTATACGTGGTCAACTT
CATGTTAGTGGGGATGGATTAAGAGTGGTTGATGATGACACAAAAGGATTGATTGTGGAT
CAAACGATCGAGAAAGTTAGTTTTTGTGCACCAGATAGAAATCATGAACGTGGATTTAGT
TATATTTGTCGTGATGGAACAACACGCAGATGGATGTGCCATGGATTTCTAGCGACAAAA
GATTCTGGTGAACGTTTGTCGCATGCAGTTGGCTGTGCCTTTGCAGTATGTTTAGAACGT
AAACAACGACGTGATAAAGAATGTTCTGTAACAATGACATTTGATATGAAAAATTCAACA
TTTACACGAACTGGATCTTTCCGACAGCAAACTATGACTGAACGCCTGGTAGATCCACCA
CCATCAGCAGCTGTTGCTCCACAACCCAAATCTGCATATAATCCCTTTGCTATTGAACGT
CCACATGCTACTCCCTCGATGCTGGAACGTCAGGGTAGTTTCCGTGGTTTTACACAAATT
GGTGCTCAATCTCCTTTCAAAAGACAAATGTCATTACGGATCAACGATTTACCTTCAAAT
ACAGAGCGCCAACGTGCTTTCTTAGATACAAATATTGCACAAAGATCAACAGTTTCACCC
ATTCCTGAAAATTCAGTTTCTCCACAGCAAGTTGATACAGTTAGTGAATTATGCAAAGAA
CTAAGTCAAGGATTACAAATGTTGTCAAAAGATACGGAGAATTTTTTGAACTTTGAAAAA
ATTGCTAACGGCATCATTGGCTCTTCAAACCCAAACATTCCATCACCTCCATCATGTCCA
ACATCTGTTGTTGCTCCATACCGTCCATTAGCAGCATCTTCAGTGCAAAATTCATCAATT
CCTATTGGTACTGCTACACCTTTTAAACAACAACCTATAATATCACTAAAAAAAGATGAA
GTGAAATATAGCAGTCTTGTGTCTTCAGCTGCTGATTTATCACCCACACTTCCAGTTGTA
TCTGAAAGTTTTCCAAAACCACCCTCGCCAAAACGCTCTGTTTCTCCGCCATCATCGCCG
CAAAAAATTCTCCGGATTCAAACAGCTGATCCTCTGCCAAAGGCAGAACAATGGTTGACT
GAGATAGTGAAACAAGCTTCGCCTTCACCCAAACGAACTTCTAGATCAAAATCACTTGCA
GATGTTGATCCTATTGATAGTGCACTTGCTGATTGGTCAAATACCCAACCTATTGAAACA
GCACAAACACCAGATATACCAACAACATCATCATCATCATATCATAGTACCAATCCTTTT
GTTTCACCTACTAATCAAATTCAACAGTCATTTCAAGTTCAATTGTAA
>g6627.t1 Gene=g6627 Length=555
MGNSSSHQPLERGFTRGTFGDIKNVKSSSFRSSKRFSPKKMDRLRKSFRDSFRRRKDRVP
EASKPHLWQTDEQEVRSATCVFPVKYLGCVEVFESRGMQVCEEAIKVLRNSRRRPIRGQL
HVSGDGLRVVDDDTKGLIVDQTIEKVSFCAPDRNHERGFSYICRDGTTRRWMCHGFLATK
DSGERLSHAVGCAFAVCLERKQRRDKECSVTMTFDMKNSTFTRTGSFRQQTMTERLVDPP
PSAAVAPQPKSAYNPFAIERPHATPSMLERQGSFRGFTQIGAQSPFKRQMSLRINDLPSN
TERQRAFLDTNIAQRSTVSPIPENSVSPQQVDTVSELCKELSQGLQMLSKDTENFLNFEK
IANGIIGSSNPNIPSPPSCPTSVVAPYRPLAASSVQNSSIPIGTATPFKQQPIISLKKDE
VKYSSLVSSAADLSPTLPVVSESFPKPPSPKRSVSPPSSPQKILRIQTADPLPKAEQWLT
EIVKQASPSPKRTSRSKSLADVDPIDSALADWSNTQPIETAQTPDIPTTSSSSYHSTNPF
VSPTNQIQQSFQVQL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6627.t1 | CDD | cd01268 | PTB_Numb | 66 | 200 | 5.38294E-103 |
| 6 | g6627.t1 | Gene3D | G3DSA:2.30.29.30 | - | 66 | 203 | 2.5E-56 |
| 16 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 25 | 49 | - |
| 13 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 441 | 455 | - |
| 15 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 441 | 462 | - |
| 11 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 483 | 502 | - |
| 14 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 508 | 555 | - |
| 12 | g6627.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 509 | 555 | - |
| 3 | g6627.t1 | PANTHER | PTHR47368 | NUMB | 41 | 361 | 9.3E-138 |
| 4 | g6627.t1 | PANTHER | PTHR47368:SF2 | NUMB | 41 | 361 | 9.3E-138 |
| 7 | g6627.t1 | PIRSF | PIRSF017607 | Numb_numb_like | 1 | 244 | 5.6E-144 |
| 8 | g6627.t1 | PIRSF | PIRSF017607 | Numb_numb_like | 236 | 555 | 9.9E-26 |
| 1 | g6627.t1 | Pfam | PF00640 | Phosphotyrosine interaction domain (PTB/PID) | 82 | 203 | 1.1E-24 |
| 2 | g6627.t1 | Pfam | PF06311 | NUMB domain | 255 | 345 | 1.8E-35 |
| 17 | g6627.t1 | ProSiteProfiles | PS01179 | Phosphotyrosine interaction domain (PID) profile. | 82 | 207 | 32.57 |
| 10 | g6627.t1 | SMART | SM00462 | PTB_9 | 77 | 207 | 6.6E-41 |
| 5 | g6627.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 58 | 207 | 3.14E-41 |
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 K06057 (numb)
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.
