General information for g6249.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Run domain Beclin-1-interacting and cysteine-rich domain-containing protein.
Parent gene
- The parent gene g6249 is located on chr_2: 15611989..15616990 (- 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 | g6249 | g6249.t1 | TTS | g6249.t1 | 15608963 | 15608963 |
| chr_2 | g6249 | g6249.t1 | isoform | g6249.t1 | 15609170 | 15611989 |
| chr_2 | g6249 | g6249.t1 | exon | g6249.t1.exon1 | 15609170 | 15609385 |
| chr_2 | g6249 | g6249.t1 | cds | g6249.t1.CDS1 | 15609170 | 15609385 |
| chr_2 | g6249 | g6249.t1 | exon | g6249.t1.exon2 | 15609449 | 15611596 |
| chr_2 | g6249 | g6249.t1 | cds | g6249.t1.CDS2 | 15609449 | 15611596 |
| chr_2 | g6249 | g6249.t1 | TSS | g6249.t1 | 15609788 | 15609788 |
| chr_2 | g6249 | g6249.t1 | exon | g6249.t1.exon3 | 15611780 | 15611989 |
| chr_2 | g6249 | g6249.t1 | cds | g6249.t1.CDS3 | 15611780 | 15611989 |
Sequences
>g6249.t1 Gene=g6249 Length=2574
ATGGAAGATAACAAAAATATCGAAAATAAGGATTTAGTGAAAATGGAGAAAATAAATGAA
GTATTACTGAAAGATTTGTTGAAAAGTGTTGAGGAATTTATAAACAAAAGAGAGAGTGAA
AAAATTACAGCATCAACATCTCAACTTACAGATCTTGCAGAAAACTTAAAGAAAATATTT
TACAGTCGTATTAAACTTTTAAATAAGAATGGAACACCCAATATGCGAAAAATATTTGGA
TTTATCACAGTAGAATTTATGAATGAATCTATAGAGAATCAACGACTACATTTCAACAAA
TGGCTTTTGGAAAACATTTTAAAATGCAAGCTATCAAATTTCCTCTCGTTCATTCTTTCA
GACTCTGAACATATAAACAATTTTTATGAATCAGATGCTTTCATTCGTTCGGAAGTATAT
CAAAATGCACTTATGAAGTGCGTATTAGCATTAGAATCTAATGAGAAACGTCATTTACCT
AAAATTGAAACATTTACATCATCGGAAAAATTCAAACCAGGTCATAGACGTTCCATTTCA
CAACCATTTATTTCACTAAACGAAAACAACGCAGCTGTCGCTCGCAAATCTATCTTATCA
CATATGAAAAAAGTCTCAAGGACGTTAGATTTCGTCTGTGTTGGTAATGAAGCTAAAGTG
AAAGTTAAGCTTAGACGAACAAAAAGTTTACCGAATCTGAGTCATGAATCTTTAAACAAT
CGTCCAAGATCAAAAACAATTAATGCTCAATGTGCACTGAAATTTCAAAAGAAAGTTTCA
TTCAAAAATGAAATTGCAAAGGATGTTACAGAACAAGTGCCTTTCTTCGATTATAAAGAA
TCTCTTAATTTAAATAAACAATCTGTGCCTACTCCTCAACCGCCATCAATTCATCTCGTC
AAAGTTGATGATATTAAAATTCACACTGATTATCGATATTCATCCGAGTACAAAGCGAGT
CTTTCATCAAGTCCAGCTTCAAGTTTTTCATCAAAAATTTCATTAACACCTAAACGATCA
TCATTTTTCAATCTTTTCGAAACTGCTTCTGATGTATGTAAAATTTCATCACCCGAATTA
TCGAACACAAGTCCGACTGATATTTTTTTTACTGAAACTGTCGTGTCTGGCTCTAAAATT
CGATCAAAATCAACAATTTCACCGCCAAGTTTACTTCAAGAGACTGGACATAGGAAAAAA
TCAAGTCGTCAAAATCTCGCACATTTTATTCACACGCTCAACAGCTCACGACATAAGGTT
GTTGAGTTAGAACGTGAGAATTTGCATTTTCATTTGTCTGAGGCCATTATTGCAGCTTGC
GAACAACTGAAATGGAACAAAATGTTCAATGAAAAATATAAAATTCCAAAAGATTGTCGC
ATCAAACAAAGTCTAACTCATACAACGCAAAAAGTTATTCAACCACCGCCTAAAATCAGA
AATCCAGCAAAATTTACAATTGGTTCAGTTGAAGATGACACAGAATCAAGTTTATCATCA
GATGAAGTTCCTAATCAACGTTCATCAAGTTCAGAAGATATAAGTATTGAAAATACACCA
CAAATGGAATGGACATCATCCTTCGATACACATTCAGCTGAAGGAATTGCAATAGCTTTA
ATGTCAAAATTCCAAAATCAAAAACTTCCTAGTGCCAATAATTTATTATGGCTTGTGAAC
GAAACACAAGCACCGCAATCACTCTTGCCACTTCCTGATAGCTTTCCAATTAATCCCGAT
GAAAATTTATCATTCAATGCCATTCGAGGAAATACAATGTGGGCAGCGCCTCGACCACAA
ATTATTTTCACTATTCATCCAGTGCCTGATCGAAAACGACAAATGTTTCAACAAGGAAAT
CGTTGTGCCGGATGTGGAATTAAAATTGCTGCAGCTTATATTCATAAACTTCGCTATTGT
GATTATATTGGAAAGTATTTCTGTACAGCATGTCACAAAAATCAAGTCTCTGTCATACCA
GCGAGAGTATTAAATAAGTGGGATTTTGCATTAAATCCAGTCAGTAATTTTGCATATAAA
TGGCTTGATCAGATTTGGTCTTTGCCGCTTTTTCATGTAAGCGATTTAAATTCAAAGCTG
TATCAGAAATCAAAACCATTAGCGAATGCTCGAGAAGCGAGATTGCAACTAAAATATGTA
GTAGATTTCATTAAGCAATGCAGATTTGCTGAAAAAGAACAGCAGGAGATTATGCAAGAA
ATTTCACTTCATTGGATCGAAGATGTTGATATTTGGAGTATGAATGATTTTATGAGTGTT
AAAAATTCTATTTTTACAATTAAAATCGAAGAAATTATAAAACAATGTGAGCAGCATATT
ATTAAAAATCATTGCGAGCTCTGCAATGCACGTGGATTTATTTGTGAACTTTGTCCAAAT
AAGAAAGATATAATTTTTCCTTGGATGAACAAAATAAAGCGATGTATTGCGTGCGGTAGC
TGTTATCATGAGAAGTGCTTTACATCGCAATGTAGCAAATGTGAAAGATTGAAAAGACGT
AGAAAGCCGATTCAAACTTCCAATTTCAAGAGCGCTACCACAACTAATAGCTGA
>g6249.t1 Gene=g6249 Length=857
MEDNKNIENKDLVKMEKINEVLLKDLLKSVEEFINKRESEKITASTSQLTDLAENLKKIF
YSRIKLLNKNGTPNMRKIFGFITVEFMNESIENQRLHFNKWLLENILKCKLSNFLSFILS
DSEHINNFYESDAFIRSEVYQNALMKCVLALESNEKRHLPKIETFTSSEKFKPGHRRSIS
QPFISLNENNAAVARKSILSHMKKVSRTLDFVCVGNEAKVKVKLRRTKSLPNLSHESLNN
RPRSKTINAQCALKFQKKVSFKNEIAKDVTEQVPFFDYKESLNLNKQSVPTPQPPSIHLV
KVDDIKIHTDYRYSSEYKASLSSSPASSFSSKISLTPKRSSFFNLFETASDVCKISSPEL
SNTSPTDIFFTETVVSGSKIRSKSTISPPSLLQETGHRKKSSRQNLAHFIHTLNSSRHKV
VELERENLHFHLSEAIIAACEQLKWNKMFNEKYKIPKDCRIKQSLTHTTQKVIQPPPKIR
NPAKFTIGSVEDDTESSLSSDEVPNQRSSSSEDISIENTPQMEWTSSFDTHSAEGIAIAL
MSKFQNQKLPSANNLLWLVNETQAPQSLLPLPDSFPINPDENLSFNAIRGNTMWAAPRPQ
IIFTIHPVPDRKRQMFQQGNRCAGCGIKIAAAYIHKLRYCDYIGKYFCTACHKNQVSVIP
ARVLNKWDFALNPVSNFAYKWLDQIWSLPLFHVSDLNSKLYQKSKPLANAREARLQLKYV
VDFIKQCRFAEKEQQEIMQEISLHWIEDVDIWSMNDFMSVKNSIFTIKIEEIIKQCEQHI
IKNHCELCNARGFICELCPNKKDIIFPWMNKIKRCIACGSCYHEKCFTSQCSKCERLKRR
RKPIQTSNFKSATTTNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6249.t1 | Gene3D | G3DSA:1.20.58.900 | - | 10 | 155 | 4.4E-6 |
| 9 | g6249.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 488 | 521 | - |
| 10 | g6249.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 490 | 521 | - |
| 3 | g6249.t1 | PANTHER | PTHR45971:SF3 | RUN DOMAIN BECLIN-1-INTERACTING AND CYSTEINE-RICH DOMAIN-CONTAINING PROTEIN | 64 | 386 | 6.5E-116 |
| 5 | g6249.t1 | PANTHER | PTHR45971 | PHOX (PX) DOMAIN-CONTAINING PROTEIN | 64 | 386 | 6.5E-116 |
| 4 | g6249.t1 | PANTHER | PTHR45971:SF3 | RUN DOMAIN BECLIN-1-INTERACTING AND CYSTEINE-RICH DOMAIN-CONTAINING PROTEIN | 397 | 851 | 6.5E-116 |
| 6 | g6249.t1 | PANTHER | PTHR45971 | PHOX (PX) DOMAIN-CONTAINING PROTEIN | 397 | 851 | 6.5E-116 |
| 2 | g6249.t1 | Pfam | PF02759 | RUN domain | 25 | 151 | 6.8E-7 |
| 1 | g6249.t1 | Pfam | PF13901 | Putative zinc-RING and/or ribbon | 638 | 838 | 2.5E-60 |
| 12 | g6249.t1 | ProSiteProfiles | PS50826 | RUN domain profile. | 17 | 164 | 9.509 |
| 8 | g6249.t1 | SMART | SM01175 | DUF4206_2 | 638 | 841 | 4.4E-92 |
| 7 | g6249.t1 | SUPERFAMILY | SSF140741 | RUN domain-like | 18 | 155 | 2.88E-9 |
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 K19330 (run domain Beclin-1 interacting and cysteine-rich containing 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.
