General information for g16958.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytosolic purine 5’-nucleotidase.
Parent gene
- The parent gene g16958 is located on chr_4: 11876297..11877993 (- 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_4 | g16958 | g16958.t4 | TTS | g16958.t4 | 11868418 | 11868418 |
| chr_4 | g16958 | g16958.t4 | isoform | g16958.t4 | 11868603 | 11876297 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon1 | 11868603 | 11868904 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon2 | 11868963 | 11869379 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS1 | 11869242 | 11869379 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon3 | 11869434 | 11869650 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS2 | 11869434 | 11869650 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon4 | 11869975 | 11870100 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS3 | 11869975 | 11870100 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon5 | 11870175 | 11870359 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS4 | 11870175 | 11870359 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon6 | 11870472 | 11870603 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS5 | 11870472 | 11870603 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon7 | 11870666 | 11871264 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS6 | 11870666 | 11871264 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon8 | 11871572 | 11871777 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS7 | 11871572 | 11871777 |
| chr_4 | g16958 | g16958.t4 | exon | g16958.t4.exon9 | 11876227 | 11876297 |
| chr_4 | g16958 | g16958.t4 | cds | g16958.t4.CDS8 | 11876227 | 11876297 |
| chr_4 | g16958 | g16958.t4 | TSS | g16958.t4 | 11876339 | 11876339 |
Sequences
>g16958.t4 Gene=g16958 Length=2255
ATGGAGACAAATAATTTGACAACTAATGGAGCCGACAATAAAAAGTTTTACAAACGAGAA
ACAGCTCATAGAATATTTGTAAATCGTTCTTTGCATTTGGAAAAAATAAAGTACATAGGA
ATGGATCTTGATTATACAATTGCTGAATATAATTCACCACAATATGAAACACTTGGATTT
GATTTAATTAAAGAACGACTTGTTACAGTCGGTTATCCAGAGGAAATTTTAGAATTTCAA
TATGATCAGAGTTTTCCTATTCGTGGATTGTGGTTTGATACTCTTTATGGAAATTTATTA
AAAGTTGACGCCTATGGCAATATACTTGTCTGTGTACATGGTTTCACTTTTCTAAAACCG
CAAGCAATTTACGATTTGTATCCAAACAAGTTCCTACAACTTGATGAATCACGAGTTTAC
GTTCTCAATACACTTTTCAATCTTCCTGAAACTTATTTACTCGCATGTCTTGTTGACTTT
TTCACAAATTCTCCACAATACCAAAGTGAACGTACTGGAGTAAAAATTGGTGAACTTTTC
ATGTCTTTCCGTTCAATTTTTCAAGATGTTCGTGGCGCTGTTGATTTTGTGCATTTACAT
GGCGATCTCAAGTCAAAAACTGTTGAAAATCTCGATTATTATGTTAAAAAAGATTCACGT
CTGCCATTGCTTTTAAATCGCATTCGTGGTTCAGGAATTAAAACTTTTTTGCTTACCAAT
AGTGACTACAATTTCACCAATAAAATTATGACCTATCTTTTTGATTTTAATGAACGACCT
GTTGGACTGAGTGATAATTTAAAAGATCACAAAAATTGGCGATCGTACTTTGATGTGATT
GTTGTTGATGCTAGAAAGCCTTTGTTCTTTGGTGAAGGAACAATTTTGAGACAAGTTGAT
TTAAAAACTGAAAAATTAAAAGTTGGAACATACTTGGGCAGCTTACAAGAAGATCAAATT
TATTCTGGTGGCAGTTGTGAAGTTTTTACTTCATTGCTTGGCGCAAAGGGTAAAGACGTT
CTCTATATTGGTGACCATATTTTTGGTGACATTCTTAAGAGTAAGAAAAAGCGTGGTTGG
AGAACATTTTTAGTTGTTCCAGAATTACAAGATGAATTGCGTGTATGGACTGAAAAACGT
CAGTTGTTCCATGATCTTCAACAACTTGACATTAAATTAGGTGAAATTTATAAAAATCTT
GACTCGAGTACCAAAGAAAAGCCTGATATTTCTGCCTTAAGAAATCACGTACGTGAAGTT
ACACATCAAATGGACATGAATTATGGAATGATGGGAAGCCTTTTTAGATCTGGATCAAGA
CAAACATTTTTTGCATGGCAAGTGACTCGATATGCGGACATTTATGCAGCAACTTTCTTG
AATCTTCAGTTTTATCCATTCAGTTACATGTTTCGTGCACCAGCAATGCTTTTACCACAT
GAAAGTACAGTTGAGCATCAGCAAAAGTTTAAAAGTGAAGAAAATCATGTACCATTTAAA
GCGACAAGACAATTCAGTCATCATGATTCACTAAAGCCGACAACTGATCATCTTGTAAAT
GCACGACCTCCAACTCCACAAAGTGTAACTCACTATCACGATGAGGATGGCGACGATGAT
GACTCGGATGATAAGAAATCAGATAAACCTGTCTCAGATGAAGACCAAATATAAACAAAT
TAAAATTGATAACCAGCAACGAGTGAGAAAACACAAAATTGAGTCTAAATATAAAAATCT
ATATTTTTTGTAGTCTAAAGAATTTTTGCCTATAATGAAATTTGTAATCTTTTTCTGAGA
TTCCTCTGTTGGAAAAGTAAACAAGAAATTATGAAATGTAGATGATAATGAAGCAATATT
TATAAAAATAGGAAAACTAAATAATAGAGACAGCAAATACACAACAACAAAAACAAGCAC
TGATTATTCATTGATACTTTGAGGTTTTCTTTTTGATTATGAATGAATTTTTTTATAAAA
ATATTGATTTAAAATTTTATTTTTAGTTTCTGTTTGATTATTTTTTTACTTAGATTAAAA
AATTTGCTAAAATTTCTTTTTTTTTTTTGTATCTTAAAATTTTTTAAATTCTACTTTGAT
GCTGTTTGGATATTTTGTAGTGCAAATTCTATAATGCTTATTTCTCTTCTATACTGCAAT
CTTCATGTAAGCCTTTAAAACTTTTTAGATAGAGCATGGTGCACTTGTTGTTTACTTACT
ATTTTCAAAACAGCTTCTAAACTTTAAATCATCAA
>g16958.t4 Gene=g16958 Length=557
METNNLTTNGADNKKFYKRETAHRIFVNRSLHLEKIKYIGMDLDYTIAEYNSPQYETLGF
DLIKERLVTVGYPEEILEFQYDQSFPIRGLWFDTLYGNLLKVDAYGNILVCVHGFTFLKP
QAIYDLYPNKFLQLDESRVYVLNTLFNLPETYLLACLVDFFTNSPQYQSERTGVKIGELF
MSFRSIFQDVRGAVDFVHLHGDLKSKTVENLDYYVKKDSRLPLLLNRIRGSGIKTFLLTN
SDYNFTNKIMTYLFDFNERPVGLSDNLKDHKNWRSYFDVIVVDARKPLFFGEGTILRQVD
LKTEKLKVGTYLGSLQEDQIYSGGSCEVFTSLLGAKGKDVLYIGDHIFGDILKSKKKRGW
RTFLVVPELQDELRVWTEKRQLFHDLQQLDIKLGEIYKNLDSSTKEKPDISALRNHVREV
THQMDMNYGMMGSLFRSGSRQTFFAWQVTRYADIYAATFLNLQFYPFSYMFRAPAMLLPH
ESTVEHQQKFKSEENHVPFKATRQFSHHDSLKPTTDHLVNARPPTPQSVTHYHDEDGDDD
DSDDKKSDKPVSDEDQI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g16958.t4 | CDD | cd07522 | HAD_cN-II | 26 | 457 | 8.18956E-159 |
| 6 | g16958.t4 | Gene3D | G3DSA:3.40.50.1000 | - | 20 | 68 | 2.7E-7 |
| 5 | g16958.t4 | Gene3D | G3DSA:3.40.50.1000 | - | 201 | 392 | 3.0E-54 |
| 9 | g16958.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 516 | 557 | - |
| 10 | g16958.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 543 | 557 | - |
| 2 | g16958.t4 | PANTHER | PTHR12103:SF17 | CYTOSOLIC PURINE 5’-NUCLEOTIDASE | 14 | 505 | 1.4E-226 |
| 3 | g16958.t4 | PANTHER | PTHR12103 | 5’-NUCLEOTIDASE DOMAIN-CONTAINING | 14 | 505 | 1.4E-226 |
| 7 | g16958.t4 | PIRSF | PIRSF017434 | NT5C2 | 5 | 508 | 9.1E-182 |
| 1 | g16958.t4 | Pfam | PF05761 | 5’ nucleotidase family | 25 | 482 | 2.0E-167 |
| 4 | g16958.t4 | SUPERFAMILY | SSF56784 | HAD-like | 23 | 483 | 8.15E-149 |
| 11 | g16958.t4 | TIGRFAM | TIGR02244 | HAD-IG-Ncltidse: HAD superfamily (subfamily IG) hydrolase, 5’-nucleotidase | 25 | 385 | 2.4E-121 |
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 K01081 (5’-nucleotidase)
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.
