General information for g14178.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative RNA-binding protein NOB1.
Parent gene
- The parent gene g14178 is located on chr_1: 35247403..35248797 (- 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 | g14178 | g14178.t1 | TTS | g14178.t1 | 35247343 | 35247343 |
| chr_1 | g14178 | g14178.t1 | isoform | g14178.t1 | 35247403 | 35248797 |
| chr_1 | g14178 | g14178.t1 | exon | g14178.t1.exon1 | 35247403 | 35248671 |
| chr_1 | g14178 | g14178.t1 | cds | g14178.t1.CDS1 | 35247403 | 35248671 |
| chr_1 | g14178 | g14178.t1 | exon | g14178.t1.exon2 | 35248732 | 35248797 |
| chr_1 | g14178 | g14178.t1 | cds | g14178.t1.CDS2 | 35248732 | 35248797 |
| chr_1 | g14178 | g14178.t1 | TSS | g14178.t1 | 35248876 | 35248876 |
Sequences
>g14178.t1 Gene=g14178 Length=1335
ATGACAAAAAAGATAAGGAATCTTGTAGTTGATACCAGTGCATTTATAAAGAATGCACAG
TTACAGGAATTGGCTGAAAATGTGTTTACAATTCAAGAAGTTCTCGATGAGATTAAAAAT
AATCGTCAATACAAAGCGTTGGCCGTTCTTCCATATACTCTAGAAGTGAAGCAAGTTGAT
CAGGAATCGATTAAAATTATTACAGACTTTTCAAAGAAATCAGGCGACTATGCAACTTTA
TCTGCAACAGATATTAAAGTTTTGGCACTTACGTATCAATTAGAAAAGCAATTTGTAGGT
GTTGATCATTTAAGAAAAGAGCCAATCATTGCAAAAACTGTGTATACAGCAAAACCCACA
GAAAATTCAACAAATAAAACTCAATTAGCTGGTTTTTATAATCCATCAGAAGATGAAAAC
GACAGTATCAGTCAAAATATTGATGATATTGAAGAAAAAGAGGAGGCAGAAGATGAAGCA
AGTGATAACGAAAACAATAGTGATGAAAGTCAAGAAAGTGAAGAGGAAGAAGAGAATGAA
CCAGAACCATCTGTTAATGATGATGAGTTGATAAAGAAATTCGGAAATTTAGGATTTAAT
ACAATTTCAAATGATAAAGTTGATGATATTTTGCAACCAGTGAAAGAGTCAGAAGATGAA
ATTGAAAAAGTAGATGAAGTTTTTGAAGAAGATGAAGCAAATGACGATGATGAAGGTTGG
ATCACACCGAATAACATCAGTAATGTGAAAAAGAATTTCAGTGGAAATGTGTTAGAAGAG
AAAGACGTTGAAGTTGCATGCATAACTACAGATTTTGCAATGCAAAACGTTCTCAAGCAA
ATGAATCTTAATGTGACCTCACTTGATGGTCGTATTATTAAACATGTGAAAACTTTTATT
CTTAGATGCTACACTTGCTACAAAACTACACCTGATCCAACCAAAATCTTTTGTCCAAAG
TGTGGCCATAAAACATTAAAGCGAGTTTCTGTGAGCATTAATGAAAAGGGCGAACAAGTT
ATTCATTTGAATCCTAAAAAACAAATTACAACAAAATTCAAGAATCAATCACTACCCAAA
CCAAAAGGAGGAAAACATGCATGTAATCCACTTTTATTTGCTGATCAAATAATTCCGCAA
CAACGAGTTTCAAAGAAGGCACTTCTTAAGACAGATGCATTAGATGACAATTATACCGCT
GGTTATTCACCATTCGTCATTAGAGATCTTGATTCACGATCGGCTAAACTGAGATGCACA
AACAACATAAAACAGTGGATGCAAAATTATGAATATGACAATGCAAGAAGAGGATATAAG
AAGAATAAAAAGTAA
>g14178.t1 Gene=g14178 Length=444
MTKKIRNLVVDTSAFIKNAQLQELAENVFTIQEVLDEIKNNRQYKALAVLPYTLEVKQVD
QESIKIITDFSKKSGDYATLSATDIKVLALTYQLEKQFVGVDHLRKEPIIAKTVYTAKPT
ENSTNKTQLAGFYNPSEDENDSISQNIDDIEEKEEAEDEASDNENNSDESQESEEEEENE
PEPSVNDDELIKKFGNLGFNTISNDKVDDILQPVKESEDEIEKVDEVFEEDEANDDDEGW
ITPNNISNVKKNFSGNVLEEKDVEVACITTDFAMQNVLKQMNLNVTSLDGRIIKHVKTFI
LRCYTCYKTTPDPTKIFCPKCGHKTLKRVSVSINEKGEQVIHLNPKKQITTKFKNQSLPK
PKGGKHACNPLLFADQIIPQQRVSKKALLKTDALDDNYTAGYSPFVIRDLDSRSAKLRCT
NNIKQWMQNYEYDNARRGYKKNKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g14178.t1 | CDD | cd09876 | PIN_Nob1-like | 8 | 108 | 5.96244E-43 |
| 8 | g14178.t1 | Coils | Coil | Coil | 21 | 41 | - |
| 9 | g14178.t1 | Coils | Coil | Coil | 153 | 173 | - |
| 7 | g14178.t1 | Coils | Coil | Coil | 214 | 234 | - |
| 5 | g14178.t1 | Gene3D | G3DSA:3.40.50.1010 | - | 1 | 119 | 1.0E-27 |
| 6 | g14178.t1 | Gene3D | G3DSA:3.30.40.120 | - | 286 | 363 | 9.0E-24 |
| 12 | g14178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 151 | 187 | - |
| 13 | g14178.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 151 | 184 | - |
| 3 | g14178.t1 | PANTHER | PTHR12814 | RNA-BINDING PROTEIN NOB1 | 2 | 438 | 2.8E-112 |
| 10 | g14178.t1 | PIRSF | PIRSF037125 | Nob1 | 1 | 444 | 1.5E-117 |
| 2 | g14178.t1 | Pfam | PF17146 | PIN domain of ribonuclease | 8 | 94 | 2.4E-30 |
| 1 | g14178.t1 | Pfam | PF08772 | Nin one binding (NOB1) Zn-ribbon like | 293 | 364 | 1.1E-25 |
| 4 | g14178.t1 | SUPERFAMILY | SSF144206 | NOB1 zinc finger-like | 293 | 349 | 1.44E-19 |
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:0004521 | endoribonuclease activity | MF |
| GO:0000469 | cleavage involved in rRNA processing | BP |
| GO:0042274 | ribosomal small subunit biogenesis | BP |
KEGG
Orthology
- This transcript has been annotated with K11883 (RNA-binding protein NOB1)
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.
