General information for g4219.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4219 is located on chr_2: 330114..331422 (- 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 | g4219 | g4219.t1 | isoform | g4219.t1 | 328005 | 330114 |
| chr_2 | g4219 | g4219.t1 | exon | g4219.t1.exon1 | 328005 | 328864 |
| chr_2 | g4219 | g4219.t1 | cds | g4219.t1.CDS1 | 328005 | 328864 |
| chr_2 | g4219 | g4219.t1 | exon | g4219.t1.exon2 | 329028 | 330114 |
| chr_2 | g4219 | g4219.t1 | cds | g4219.t1.CDS2 | 329028 | 330114 |
| chr_2 | g4219 | g4219.t1 | TSS | g4219.t1 | NA | NA |
| chr_2 | g4219 | g4219.t1 | TTS | g4219.t1 | NA | NA |
Sequences
>g4219.t1 Gene=g4219 Length=1947
ATGACGACCGATATGGAATTCGACAATGTGCATCCAGCACAAGATTTTAAAAAACAAAAA
ACCACACAATTTGCAATTCCTATTCACAATACCTACGCATCCTTAAACACAGACGATGAT
GGCCAACCTATTGAAAAAATTTTGACGAAAGGATATAAAACGAGCAATCCTAATACACAA
AAACCTCCACCAATTAACCTCATCGGTGCAACAATCCAGCAAGTTGACAATATTTTCAAA
CATATAAACAAGACTGACTATGAAATGAAATTAACATCAGAAGGTATTAGACTTTTCACT
AAGACAATCAGCACCTTTAAAGAAGTTCGTGAACTGCTAATTGCAAATGAACTTCAATAT
TACACTCACCAATTAAGAGATGAACAGATGACGAAAATGGTGTTACATGGGTTACCTGAC
GCAGATATTGAAACAGTCACAACTGCAATTACCCAAGCACAATTAACTCCTGCGATGGTT
AAGAAAATGCAGATCAAAAACAAGAAATACGATGGGCATGCAGTTTATCTGGTTTACTTC
ATGAAAAAAGATAAAATCAGACTTAATGATTTGATAGAGAAACACAGAATTGTCTCATGT
ATTCGAGTGAAATGGGAACACTACAAGAACCCTTCCAAGGGTCCTACACAGTGCCGAAAT
TGCCAAAGATATGGACACGGCAGTAATAATTGTTCAGCCACATCACGATGCGTCAGATGC
GCCTCGAACCATAAATCGGGCGATTGCCCTCTCATTAAGAACGAAACTGGAAAAGTTATA
ATAAAGAGAATTGAAAATTCTGCATTGAGATGTGTACTCTGTGGGCTGAATCATGCAGCT
AGCTCTAAAGACTGCAACAAAAGAAGAGAGTTTATAAACTCTAAAAAACAAATAAACAAA
CCTACACCAAAATCAAGAAATTCTGGAAGATATAATACTGAAAATAGAACTTTTCAACCA
GCGCCCGAGCTGAATGACTTCAATTTTCCAAGACTACCGCAAAAATCCTTCGAGCGAACA
ACAAAGGCTGCACCACCGATCCAGGACATTCCGCCTAAGGAATCAAATGCTGATTTGGTC
GATGACATCCTATATTGGAACTGCAATGGAATCCAAAACAAAATCCACGAACTTTATTTG
TATGCAAATAAAAATTTTATTCATGTAATCTGTCTCAATGAGACCTTTCTCAAAAATAAT
GTAAAACTTGCACATGATCCAGAATATGTTATATACCGTCTAGATAGAGCTGAACAAAAC
AAAGGTGGTGTCGCTATTCTTGTCCGAAAGAATCTAAAACACCAAATCCTTCCTATTCTG
CAAACAGAAATAATTGAAAATGTTGGTATCACTATACCTTTAACAAATGGCACAAATGTC
AATATCTTCAGCGTTTATCTTCCTGGCGGATCGACAAACAGCGACATAAATAATAAATTT
GCGAATGATATTCAAATAATGATGCAATCAAGAGAGAATTCCTTCTTCTGTGGCGATCTC
AATTCAAAGCATCGATACTGGAATTGCTGCATAGCTAATAGAGCTGGAACAATACTATAC
AGTGAGTACTGCTCTAAATATTTCAATATTGACTATCCACAGGAACATACACACTATCCA
ACTGACACCAACAAAAGAGCATCTACGATCGATCTCGTGCTGTCAAATAACCCATACGAC
ATTAATCCCTCGATATGTAATGAATTGATGAGCGATCACACTGCGGTTACATTTAACATC
AAATTGCAAAATTCAGCACATGGTATTGAAAAAAGACAAACTCTTGACTATAGCAACGCA
AATTGGCACAAATACAGAAAGACACTGTCAGAAGCTTTAAGTGAATTAAATAATCAAGCT
GTCGAGACCACCGATGACATTGATTTACACACTCATAGAAAAAAAATTAATATTTTGGTA
TTAAAATTTTGTCTGAACAAAATTTAA
>g4219.t1 Gene=g4219 Length=648
MTTDMEFDNVHPAQDFKKQKTTQFAIPIHNTYASLNTDDDGQPIEKILTKGYKTSNPNTQ
KPPPINLIGATIQQVDNIFKHINKTDYEMKLTSEGIRLFTKTISTFKEVRELLIANELQY
YTHQLRDEQMTKMVLHGLPDADIETVTTAITQAQLTPAMVKKMQIKNKKYDGHAVYLVYF
MKKDKIRLNDLIEKHRIVSCIRVKWEHYKNPSKGPTQCRNCQRYGHGSNNCSATSRCVRC
ASNHKSGDCPLIKNETGKVIIKRIENSALRCVLCGLNHAASSKDCNKRREFINSKKQINK
PTPKSRNSGRYNTENRTFQPAPELNDFNFPRLPQKSFERTTKAAPPIQDIPPKESNADLV
DDILYWNCNGIQNKIHELYLYANKNFIHVICLNETFLKNNVKLAHDPEYVIYRLDRAEQN
KGGVAILVRKNLKHQILPILQTEIIENVGITIPLTNGTNVNIFSVYLPGGSTNSDINNKF
ANDIQIMMQSRENSFFCGDLNSKHRYWNCCIANRAGTILYSEYCSKYFNIDYPQEHTHYP
TDTNKRASTIDLVLSNNPYDINPSICNELMSDHTAVTFNIKLQNSAHGIEKRQTLDYSNA
NWHKYRKTLSEALSELNNQAVETTDDIDLHTHRKKINILVLKFCLNKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4219.t1 | Coils | Coil | Coil | 606 | 626 | - |
| 7 | g4219.t1 | Gene3D | G3DSA:3.60.10.10 | - | 362 | 584 | 7.0E-33 |
| 6 | g4219.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 293 | 314 | - |
| 5 | g4219.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 296 | 314 | - |
| 2 | g4219.t1 | PANTHER | PTHR36191:SF1 | - | 226 | 613 | 4.0E-12 |
| 3 | g4219.t1 | PANTHER | PTHR36191 | - | 226 | 613 | 4.0E-12 |
| 1 | g4219.t1 | Pfam | PF14529 | Endonuclease-reverse transcriptase | 461 | 576 | 1.2E-11 |
| 4 | g4219.t1 | SUPERFAMILY | SSF56219 | DNase I-like | 363 | 583 | 6.19E-31 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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. There were no conditions that were differentially expressed