General information for g2418.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Biotin–protein ligase.
Parent gene
- The parent gene g2418 is located on chr_3: 17869084..17870195 (- 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_3 | g2418 | g2418.t1 | isoform | g2418.t1 | 17866134 | 17870195 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon1 | 17866134 | 17866310 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS1 | 17866134 | 17866310 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon2 | 17866372 | 17866521 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS2 | 17866372 | 17866521 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon3 | 17866590 | 17866769 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS3 | 17866590 | 17866769 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon4 | 17866828 | 17867028 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS4 | 17866828 | 17867028 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon5 | 17867090 | 17867243 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS5 | 17867090 | 17867243 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon6 | 17867815 | 17867969 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS6 | 17867815 | 17867969 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon7 | 17868045 | 17869529 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS7 | 17868045 | 17869529 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon8 | 17869683 | 17869963 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS8 | 17869683 | 17869963 |
| chr_3 | g2418 | g2418.t1 | exon | g2418.t1.exon9 | 17870057 | 17870195 |
| chr_3 | g2418 | g2418.t1 | cds | g2418.t1.CDS9 | 17870057 | 17870195 |
| chr_3 | g2418 | g2418.t1 | TSS | g2418.t1 | 17870389 | 17870389 |
| chr_3 | g2418 | g2418.t1 | TTS | g2418.t1 | NA | NA |
Sequences
>g2418.t1 Gene=g2418 Length=2922
ATGATATTTACATTTTATTACTTAGCAGCAACTTCCTTTCAATCGTGGCGATTGAGATCA
ATTCATCAGAAGATTGCACGAGTTTTGGATAATAACAACTCGATCGTATTTCTTAAAAAA
TCTGATGAAAATAGTCATGGCATGGCAACAGTTTTAGCGGCTTCCGAGATCTGCTCTAAC
TCTGGAGAAGCAGTTGTTCATGATTGCTTTTGGTCGAATGACCTATCACAAGCTATTTCT
GTGACACCAAAACAAATTCTTTACATCAATCCTTTCATAACATTCCCAATTGCTCCGAAT
CTCATTCCATTCAGCTTTGGGAATACTAATATCCCAGATTCGACTAAAAATGATGTCATT
CATGCCTTAATTGAAGCTGACCTAAATACACAAGAAAATGCGAATGCACCAGCTCTTGAG
ATTGAAGCTTTTGCGCATATGATTGCATGGAAAATTGATTCAAAATTATCGGTTCTAGTC
AAGACAGATTTAAAGCATTTATCTCAATTAATATTTGCCACTTTTATTCATAATCATTAT
ATTATCAATGATCAGCTTTCGCTAACACGCATCCAAACAGTAAATGTAGAGGGAGAAGCT
CAAGATATCAATGAGATATTAAAACACTCAAAGAAAGACATTTTGCTACGCTCAAGTGAG
TTACTTTCGCCTACCGATTGGGAGAAACATTTAGACGGAATCAAGAGTTTAGGAGTTCTT
GCCAATCAAGCATCCGAATTTAAATACAAAAAGAATTTGACAGAAGGAAAGACTGGAGTT
GTTGTTCAACCTGATTTAATTTCATCAAAGACTATTGAAGAAAGTCTGATTCGAAAAAAT
ATAGCATCACCTGATACACCAAAAAAGAATTTTGTTTCACTTGAAAAGACAAACGAGAAA
ATTCAAGAACTGAAACAAGAATTGAAAAAGAAACATGATGCAACTGCTACCTCTACTTCA
TCTCTTTCGTCTTATGATTCTAAAAGTGTTGAAGCCATCATTTCACCAGACTCGCCGAAA
TTTCCAGTTACACCTTCGAAATCACCGAGCCAATCGATTAAAAGTAGAATTTCTAATGAA
CCTACTTCACCTAAATTTCCTGTACAATCTCCTGCTAAAAAAGCTTTCTTTGGTAACGAA
TCGAAAAGTGCAAGTCAAAATGATGTTAGAAGAATTTCTGATACGGCTAAAAATTTAGTT
GATTCAGTCATAAAAGAGGCAAAGGAAATTCCTGATGTAGTTGATTCACAAAAAAAGATA
AGTGAGAAAGTTGAAAAAGTGAAAAGTGATGTGAAAGAAGCAACAAAATCTTTTCTTAAC
AATGAACAGGAAAAGAGTGAAAATTTATTCAAAAGCGAAACTGTTGGAATGCCAAAGTCA
AAAGTAGAAAAGACAATTTTTGAAGATAAAAAAGTGGAAGAAATTAAGAAAGATATCAAA
AAAGAAGAGAAACCAGAGATTTTTCCAGTTAAAAGAGAAGAGATTAAAGAAGAAATTAAA
ACTTTAACTCCAGTTCAACAACAACTAGCCGCTCCAGATGCTCCAATCGCTACAAATCAA
TCTAAACATTATTCTCAATCAAACAAAACAAAAAGGCAAAAATTGATTGATGCCAAACCT
CCGAATGTTTTAGTCTATTCAGACAGCACGACAACGAGAAACAATGTGATTAAGACCTTG
GGTGGTATTTTAAAAGAAAACATGTACACAATTTATCCATTATCTGCACAGCAAATGCGT
GAAAAGATTTGGTTAGAAAATACAACATTGCTAGTTGTATGTGGTTCTGTGAATGGTTCA
GATATAAGCAAAATTTTCTTAGAATTCTTCTTTAAAGGCGGCAAAATCTTGTGCTTATGT
TCTGATCTGTTGCGTCAAGTTTTACCAACATACCACACCGCTGAGGTACGTGAGCATGAA
CTAGTTCAATTTTCTTATGGACAATGGAAAAATATCAAAATGATGCATCACATTTTTTGC
TACCAACCATCACCTGTTCGCAAACACTTTTCTCAGGAGAGTGATGAACCACCCAAAGAG
AAACCATCAAATGCTAATCCACTAATAGTCTTACCAAGGTCCATCGAGCTAAAGGATGAT
GTGGGGCTCGTTCATAATGTGAATGTGCAGATATTGGGTACTGAAGACACTTGGAAGACA
CCTAGCTTGCTGATGGTTTATACTGATAATGGTGGAAAAATTGTTTTTTCTCAGATTCAT
TTGGAAATCGATCCATCTTTTTATGAAAATGATGAACAAAAATATCAAATTTTAATGAAA
AATGACAATTTAAGACACGAAATTTTTGGTGATGTTTTAAGTACTCATCTTGGACTAAGC
TCTGAAGATGTTTCCAAAAAGAGCAAAGAAAGTAGAGTAGAATTTACAAAAGCATATTTT
TTGGGTCGTCATGAGTTAAAGTTTGAAATTCTTGAGCAATTGAAATCAAAAATGGAAGGT
AACGCTCTTAAAGTTAATGGCCTAACAATGAAATTTTGTGGCAAGAATGATGATCCTCCA
ACTCCAGAGTCTTATATGTTACCAATCATGGTTCATTTGTGTCCTGATGACTTCTCTACA
TTGGATTATTTTGATACATTGAAAACTGAGAAAATTGGTCGATTGATGATTTATTCACAT
GTTCTTGAAAGTACTATGAATATGGTCAATAAAATAAAATATAGTCATGGAATGGCTATT
GTTTCAAGAGTCATTTCTCAAGCAACAGGAAGAGGCAATAATCAATGGTTGAGTCCACCA
GGCTGCTTGATGTTCACTCTTCAGCTGCATATTTCTTTATCAAGTCCACTTGGTCAACGC
ATTTCATTAATTCAACATCTTGTCGCCACTGCAGTTGTTACTGGTCTGAAAAAAATTCCC
GGCTATTCAAAAGTAAGTAAAAGAAAATTTAATTTGTTTTAA
>g2418.t1 Gene=g2418 Length=973
MIFTFYYLAATSFQSWRLRSIHQKIARVLDNNNSIVFLKKSDENSHGMATVLAASEICSN
SGEAVVHDCFWSNDLSQAISVTPKQILYINPFITFPIAPNLIPFSFGNTNIPDSTKNDVI
HALIEADLNTQENANAPALEIEAFAHMIAWKIDSKLSVLVKTDLKHLSQLIFATFIHNHY
IINDQLSLTRIQTVNVEGEAQDINEILKHSKKDILLRSSELLSPTDWEKHLDGIKSLGVL
ANQASEFKYKKNLTEGKTGVVVQPDLISSKTIEESLIRKNIASPDTPKKNFVSLEKTNEK
IQELKQELKKKHDATATSTSSLSSYDSKSVEAIISPDSPKFPVTPSKSPSQSIKSRISNE
PTSPKFPVQSPAKKAFFGNESKSASQNDVRRISDTAKNLVDSVIKEAKEIPDVVDSQKKI
SEKVEKVKSDVKEATKSFLNNEQEKSENLFKSETVGMPKSKVEKTIFEDKKVEEIKKDIK
KEEKPEIFPVKREEIKEEIKTLTPVQQQLAAPDAPIATNQSKHYSQSNKTKRQKLIDAKP
PNVLVYSDSTTTRNNVIKTLGGILKENMYTIYPLSAQQMREKIWLENTTLLVVCGSVNGS
DISKIFLEFFFKGGKILCLCSDLLRQVLPTYHTAEVREHELVQFSYGQWKNIKMMHHIFC
YQPSPVRKHFSQESDEPPKEKPSNANPLIVLPRSIELKDDVGLVHNVNVQILGTEDTWKT
PSLLMVYTDNGGKIVFSQIHLEIDPSFYENDEQKYQILMKNDNLRHEIFGDVLSTHLGLS
SEDVSKKSKESRVEFTKAYFLGRHELKFEILEQLKSKMEGNALKVNGLTMKFCGKNDDPP
TPESYMLPIMVHLCPDDFSTLDYFDTLKTEKIGRLMIYSHVLESTMNMVNKIKYSHGMAI
VSRVISQATGRGNNQWLSPPGCLMFTLQLHISLSSPLGQRISLIQHLVATAVVTGLKKIP
GYSKVSKRKFNLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2418.t1 | Coils | Coil | Coil | 291 | 314 | - |
| 10 | g2418.t1 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 865 | 968 | 1.7E-16 |
| 8 | g2418.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 336 | 370 | - |
| 9 | g2418.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 344 | 366 | - |
| 6 | g2418.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 507 | 526 | - |
| 7 | g2418.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 507 | 532 | - |
| 1 | g2418.t1 | PANTHER | PTHR12835 | BIOTIN PROTEIN LIGASE | 450 | 638 | 5.5E-53 |
| 3 | g2418.t1 | PANTHER | PTHR12835:SF9 | BIOTIN–PROTEIN LIGASE | 450 | 638 | 5.5E-53 |
| 2 | g2418.t1 | PANTHER | PTHR12835 | BIOTIN PROTEIN LIGASE | 727 | 966 | 5.5E-53 |
| 4 | g2418.t1 | PANTHER | PTHR12835:SF9 | BIOTIN–PROTEIN LIGASE | 727 | 966 | 5.5E-53 |
| 12 | g2418.t1 | ProSiteProfiles | PS51733 | Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL) catalytic domain profile. | 861 | 973 | 9.169 |
| 5 | g2418.t1 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 866 | 961 | 9.94E-12 |
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:0006464 | cellular protein modification process | BP |
KEGG
Orthology
- This transcript has been annotated with K01942 (biotin—protein ligase)
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.
