General information for g11597.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Condensin complex subunit 2.
Parent gene
- The parent gene g11597 is located on chr_1: 17401376..17403730 (- 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 | g11597 | g11597.t1 | TTS | g11597.t1 | 17401184 | 17401184 |
| chr_1 | g11597 | g11597.t1 | isoform | g11597.t1 | 17401376 | 17403730 |
| chr_1 | g11597 | g11597.t1 | exon | g11597.t1.exon1 | 17401376 | 17403117 |
| chr_1 | g11597 | g11597.t1 | cds | g11597.t1.CDS1 | 17401376 | 17403117 |
| chr_1 | g11597 | g11597.t1 | exon | g11597.t1.exon2 | 17403182 | 17403377 |
| chr_1 | g11597 | g11597.t1 | cds | g11597.t1.CDS2 | 17403182 | 17403377 |
| chr_1 | g11597 | g11597.t1 | exon | g11597.t1.exon3 | 17403443 | 17403559 |
| chr_1 | g11597 | g11597.t1 | cds | g11597.t1.CDS3 | 17403443 | 17403559 |
| chr_1 | g11597 | g11597.t1 | exon | g11597.t1.exon4 | 17403617 | 17403730 |
| chr_1 | g11597 | g11597.t1 | cds | g11597.t1.CDS4 | 17403617 | 17403730 |
| chr_1 | g11597 | g11597.t1 | TSS | g11597.t1 | 17404491 | 17404491 |
Sequences
>g11597.t1 Gene=g11597 Length=2169
ATGCGTTCACTGGTTGCAAATAGTCTAAATACACCTCTTCGAAGAAGATCAGCTTTAAAT
GTTTCACTTGTTTCATCACCAATGGTGAACATCAACAATCATCATCTCGAAAATGTAAAT
GATGATGAAGCTGAACGAAGGACCTCAAGAAGAATTGAAACAAATGATAGTGGAAATCTT
AACGAAGCTGCAGATTCCTTAAACAATTGTCTCAAACTTTTTGCCGAAAATAAAATAAGC
AAAGATAATGCTTGGACATTAAATATAATTGATTCTTTTTCAAAACTCGTAAAAAAGCAT
CATCATTCGTTGTCCAATTTTCAAGTATGCGGATCTACTCTCGAAGCATCTGCAAAAGTT
TATAGTTTGCGTGTTGATTCAGTTTACACAGATGTACTGCGTATGAGTGCTGATTTATCA
AGGAGAACTGCAAAAGCTCTTACAAAAAAGAATCGCATGAATCAAGGTAATGAAGAGGAA
GAAAATGAATCTGGTAATGAAGTTAATGACAAAGAAAATGCCGATGCTAACAATCAAACA
AACGTTGAAGGAGGTGGGCAAAAACAGAAGAAAACTGCAAAAAAACGAAGACATGTTAGT
ACTGTGACAAAAAATCCTGAAACACTTAACGGACGATTAGAAACACATCCTTTGGTTGAT
CCATTTTTTGCCAAGCTTAATTCAATGGTGGGGGATATTAATAGTTCCAAACGTCTCATG
CAAAACATTATTCCGACAAAAGGCTCAAATCTAAAACTTAGACAGAATATGAAAATTTGG
GATAATGCTGAAAATTTTGATTTAAATTTAGATGAGGAATTTGATTATCATAAACTTAAT
CTTGAAGTTGATATTTTCACTTTAAAATCGGTATCAGGAAGCGTAGAAAACACATTATTG
CGCACTGAATTGAAGAGTTATAGAATTTGTGACTTACCATTGGAAACTGCAGAAGAAGCA
GATACTAGCATTCATTTAAATGATAATGATGAAATGAATGATACAGTAAGAAATGCTTCA
AATATAGGTCTACAGTTTGATATCAATGCACCAGTGGAGTCAATTCCAAATGAAAGATCT
TTTGTTATGGATTATGGCGAACTGAATGAACATGATTTTGAAGACTTGAATGATGAAGCA
ATGGTTGCAATTGAAAGATGTAAAGGTTTAAAACGACAGCCCATCGTAATTGAAGACATG
CAGCCTGATTCGGTTGTTCATTTAGAATATTCGTATAGACCTCTAGACATGATTGATCAA
TTTTGGGCTGGTCCTTCGCATTGGAAATTTCGCCAGAGTCGTAGAACTCATGCAAGCATT
TTATCAAGAGCAAGTCAAACAACAAACAGTTCTATACAAACACAAAATGCTGGACAAAAA
ATTAAAACAGTTCGAAAGAAGAAAACTTTAAAGAAAGTTGAAGTGACTTTAGACGATTTT
CTAAATATTGACGATAATGATGTGATTATGCCTATTAGTAAACGAATGAAGGCAAATCAA
CTTTCAATTCAGACAATGACAAAACGTTGGGATAGTAAAAAACTAAAACTTCCAATTGAC
TATCGAACTCCGAACGACATATTTGATATATTTAAGCATGCTTCATCAATTCAAATTGCA
TCTAATCCTGATACAACGTTTAATGGCAATGATGAAAATGCGCCGCTTTATGATTACAAT
AATGAAAACGATCGTAATTATTGCAGTCGAATTCCAGATCCCCATTCAGATACTGAGACA
GAAACTAATACAGATATTGGACCAATGGATGATAATAATATGGAATTTGATAATGTAGAA
ATGCCACCACCTCCAGCATTAATTGAAGAAATTCCTGATTTTTATATAGGAGCTCCAGAA
AGAATTGAAAAAATTAGCATAGCATTCGCAAAACGAGCGAAAGTTGTTGACATGAGACAG
CTTAAACAATGCAGCTGGAATATTATCAGTAAGAAAAATTCAAATAATCCTCTTCGACAT
CCATGTTTCTCTGAGACATTAAACGATTTACCTAAAGTTTTGAATAAAACTATGGCAGAA
AATATGAGTATGCCCCTTGCATTTTACGCAATTCTTCATCTTTGCAATGATAAAGGTCTT
TTATTGAAGCCTAACAACACATTAAGAGATTTCGAAATAGAATTTGTTAATAAATTAATG
TGTAGCTAA
>g11597.t1 Gene=g11597 Length=722
MRSLVANSLNTPLRRRSALNVSLVSSPMVNINNHHLENVNDDEAERRTSRRIETNDSGNL
NEAADSLNNCLKLFAENKISKDNAWTLNIIDSFSKLVKKHHHSLSNFQVCGSTLEASAKV
YSLRVDSVYTDVLRMSADLSRRTAKALTKKNRMNQGNEEEENESGNEVNDKENADANNQT
NVEGGGQKQKKTAKKRRHVSTVTKNPETLNGRLETHPLVDPFFAKLNSMVGDINSSKRLM
QNIIPTKGSNLKLRQNMKIWDNAENFDLNLDEEFDYHKLNLEVDIFTLKSVSGSVENTLL
RTELKSYRICDLPLETAEEADTSIHLNDNDEMNDTVRNASNIGLQFDINAPVESIPNERS
FVMDYGELNEHDFEDLNDEAMVAIERCKGLKRQPIVIEDMQPDSVVHLEYSYRPLDMIDQ
FWAGPSHWKFRQSRRTHASILSRASQTTNSSIQTQNAGQKIKTVRKKKTLKKVEVTLDDF
LNIDDNDVIMPISKRMKANQLSIQTMTKRWDSKKLKLPIDYRTPNDIFDIFKHASSIQIA
SNPDTTFNGNDENAPLYDYNNENDRNYCSRIPDPHSDTETETNTDIGPMDDNNMEFDNVE
MPPPPALIEEIPDFYIGAPERIEKISIAFAKRAKVVDMRQLKQCSWNIISKKNSNNPLRH
PCFSETLNDLPKVLNKTMAENMSMPLAFYAILHLCNDKGLLLKPNNTLRDFEIEFVNKLM
CS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11597.t1 | Coils | Coil | Coil | 373 | 393 | - |
| 5 | g11597.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 146 | 209 | - |
| 4 | g11597.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 171 | 187 | - |
| 2 | g11597.t1 | PANTHER | PTHR13108 | CONDENSIN COMPLEX SUBUNIT 2 | 39 | 714 | 5.4E-84 |
| 3 | g11597.t1 | PANTHER | PTHR13108:SF9 | CONDENSIN COMPLEX SUBUNIT 2 | 39 | 714 | 5.4E-84 |
| 1 | g11597.t1 | Pfam | PF05786 | Condensin complex subunit 2 | 67 | 713 | 1.3E-84 |
| 6 | g11597.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
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:0000796 | condensin complex | CC |
| GO:0007076 | mitotic chromosome condensation | BP |
KEGG
Orthology
- This transcript has been annotated with K06676 (condensin complex subunit 2)
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.
