General information for g14214.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Meiotic recombination protein SPO11.
Parent gene
- The parent gene g14214 is located on chr_1: 35452920..35455706 (+ 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 | g14214 | g14214.t1 | isoform | g14214.t1 | 35452920 | 35455706 |
| chr_1 | g14214 | g14214.t1 | exon | g14214.t1.exon1 | 35452920 | 35454460 |
| chr_1 | g14214 | g14214.t1 | cds | g14214.t1.CDS1 | 35452920 | 35454460 |
| chr_1 | g14214 | g14214.t1 | exon | g14214.t1.exon2 | 35454527 | 35455342 |
| chr_1 | g14214 | g14214.t1 | cds | g14214.t1.CDS2 | 35454527 | 35455342 |
| chr_1 | g14214 | g14214.t1 | exon | g14214.t1.exon3 | 35455412 | 35455706 |
| chr_1 | g14214 | g14214.t1 | cds | g14214.t1.CDS3 | 35455412 | 35455706 |
| chr_1 | g14214 | g14214.t1 | TSS | g14214.t1 | NA | NA |
| chr_1 | g14214 | g14214.t1 | TTS | g14214.t1 | NA | NA |
Sequences
>g14214.t1 Gene=g14214 Length=2652
ATGGATTCTGAAATTTCTTCTATTTCACTTCGTTATTTGATGAATATTCATAATATGCAG
CTAAATGAAAATGTCAATCAAAATTGTAGAGAATCTGAAATTGATATTTCATTTTCAAGT
GAAAATTCAAGCCAAAGCGATGATACTTTACAAAATTTTCTCAATGAAATAGAAGCTGAA
AAAAAATATATAAATAGTATTAAAGAGCATACAAAACTTCTAGGAGTTTTAGAAAATATG
CAGTTAATTCAAGAAGCTCCAGAAAATAAACAAACTTTACTAGTTGAGCAATGCAACATA
TCGATTCAATGTTCTCTTCGCGATGACACCATAATTTCATTATCACAACCTCTTGATGCA
GAAACAAACGCTCTTCGAGAGTCTGTTGAATTTTTTGATCAAAGTTTGAGTCCGCCAACA
AAACGTCCTAAAATGATTGAAAATGAATTTTTTTCATTGAATACTCAGCAAATCGTATCA
ATAGAAACGGAGAAATTTTTTAATGAGAGTGAAGTAAATACTTTAGATTTATTTGATAAT
GAATGCTCTGCACAAAGTTTGAAAAATCTGGATGAATTTAAATTTTCATTGACTCCACTA
TCACAATACTCGAGTGATGATGAAATGGAAACTTCATTTATTGAAATGGAAAATCAAGGA
AATGAAAACTTCTCAAAAGAACAACCAAATTTTAAAGTTGAAAATGAATTTTCTAAACAC
ATGAAACTAGAGAATACTACTGAAGTTATTGAAACTTCTGTTTTGGATCAAGAAATCGTT
GTTGACACATCTTATTATGCACCATACATTACAAAAACTCCTACAAAAATAATTGAAGAA
TTCTATAAAGCTCAAGAAAATATTGAAAATGAAAAGAAAAATAATTTTGATAAATTCATT
GAGCCTTCGCTTGAATATTTAGCGTCCAAACATAATATTTTACCTGTTTTTACTGTAGGT
GACAAAAATGAGAAAATTGTGATAACAGAACAAGATTCTGAAGACTATACAGACTATGGT
GAAGATCCTTGTCCGAATGAATCACTTGAAGCAATGATGGCATCATTTTTTATTGAAAAG
CCAACTTTTGTTTGTTCAACACCAGAAAAGAGCTATGAAACTGAAAATGTTGTTGATAAT
AAAGTTTGGTCAAATTTACAATTCAATAAACAGCAAGAAATGCAATTTGATGCAAACGAG
CAATTAGAGATATATAATCAATCAATGGAAAAAGTTGAAAATCAAAACCAAATACTTAAG
GATATTTCATATTGTTCTTTAATTGATGTTTCTAAATTGGTTCCTGTCTGTAACAATTCA
GAATTTGATATTACTGAAATTTTTGATATTCAATTTAATCAAGAGCAAGTTGAAGAAAAA
ATCAATGAACCTGAACAAAAAACTAACGAGTGTGAACAGGAACCTGTACAAGATAAATTA
CAAGATCTTCTTATTCTTGATTCCCGAATTAATGAAGATGAGCGATATGAAAGCATGATT
GAATTAGTTAATTCATTAAATGATTCAAAAGATAAATCGATAATCATTGAACAACGAAAA
GCAGCTATAATGTGTCATATTGAAAACATTTTTCAAACCTTAAATGAATCACTTGTAGAA
GAAAAACCATTGACAATTAAATTTCGTAAAATCAAGGATTGGAGTGATTGCACAATGGAA
GGAGATGTATTGTCACAAAAAATGACCGTTCTTGCAATGAGGACTTTAAGCTTTAGCAAT
AAAACTACACAAAGGACTTTTACAATTGTGACTCATCTCCTGAGCGAAATTTACAAAATG
TTAGCAAAAAATTCTTCATGCACCAAGCGAGAGTTGTATTATCGTGATGCTGAATTTTTA
AAAAATCAAACGTCCGTGAACAAAGCAATTGAAGTTATTTCTACAATTCTTAATGTACCA
GCGTGGGAATTAGGAGTGTTATCAACATCTAAGGGATTGATTGCTGGTGATATTGCAATA
ATAACTGAAGATGAAGTGATTGATTGCAAAACAATTAAATCAGTTCCACAAAATCCATCT
GAAATTAAGGAAATTAAATCATGTGCTGAATATGTTTTAGTAGTTGAAAAAGATACAGTT
TTCACGAAATTAATTAAAGAAGATTTCTTTGAAAAGTCATTGAAAAATTGCATTCTAGTC
ACAGCAAAAGGTTATCCAGATGTTAATACACGAGTGTTGCTAAGAAAAATCATCAATAAA
ATGAAAATTCCAGTTTATATAATTGTTGATGCAGATCCATATGGAATTGAAATAATGTGT
ACATACAAATATGGTTCATTGGAGTTGGTGAATCATTCTGAGCAGCTTGCATTATCGAAA
AATATAGAATGGATCGGAATTCATCCATCAGACATTGAAACTCTCAATATTGTCTACAAT
GATATGACAGCTGCTGATCTCAAGAAGGTCAACGATCTAATGCAGCGTCCTTACATGAAT
CCACAATTAGAAAGAGAATTAGTGCATATGAAAAATCGTAAGCAAAAAGCAGAAATTGAA
AGTATCTATGACTATTCAGTTGACTATCTTATTCAAGATTATATTCCACGCAAAATTTCT
ACAATTTCGACACTAATGGAAACACTTACACAGGAAGTTAGTGATGCAAAAGAGTTTTCA
TTGAATCAATGA
>g14214.t1 Gene=g14214 Length=883
MDSEISSISLRYLMNIHNMQLNENVNQNCRESEIDISFSSENSSQSDDTLQNFLNEIEAE
KKYINSIKEHTKLLGVLENMQLIQEAPENKQTLLVEQCNISIQCSLRDDTIISLSQPLDA
ETNALRESVEFFDQSLSPPTKRPKMIENEFFSLNTQQIVSIETEKFFNESEVNTLDLFDN
ECSAQSLKNLDEFKFSLTPLSQYSSDDEMETSFIEMENQGNENFSKEQPNFKVENEFSKH
MKLENTTEVIETSVLDQEIVVDTSYYAPYITKTPTKIIEEFYKAQENIENEKKNNFDKFI
EPSLEYLASKHNILPVFTVGDKNEKIVITEQDSEDYTDYGEDPCPNESLEAMMASFFIEK
PTFVCSTPEKSYETENVVDNKVWSNLQFNKQQEMQFDANEQLEIYNQSMEKVENQNQILK
DISYCSLIDVSKLVPVCNNSEFDITEIFDIQFNQEQVEEKINEPEQKTNECEQEPVQDKL
QDLLILDSRINEDERYESMIELVNSLNDSKDKSIIIEQRKAAIMCHIENIFQTLNESLVE
EKPLTIKFRKIKDWSDCTMEGDVLSQKMTVLAMRTLSFSNKTTQRTFTIVTHLLSEIYKM
LAKNSSCTKRELYYRDAEFLKNQTSVNKAIEVISTILNVPAWELGVLSTSKGLIAGDIAI
ITEDEVIDCKTIKSVPQNPSEIKEIKSCAEYVLVVEKDTVFTKLIKEDFFEKSLKNCILV
TAKGYPDVNTRVLLRKIINKMKIPVYIIVDADPYGIEIMCTYKYGSLELVNHSEQLALSK
NIEWIGIHPSDIETLNIVYNDMTAADLKKVNDLMQRPYMNPQLERELVHMKNRKQKAEIE
SIYDYSVDYLIQDYIPRKISTISTLMETLTQEVSDAKEFSLNQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g14214.t1 | CDD | cd00223 | TOPRIM_TopoIIB_SPO | 690 | 849 | 2.15621E-52 |
| 16 | g14214.t1 | Coils | Coil | Coil | 395 | 422 | - |
| 15 | g14214.t1 | Coils | Coil | Coil | 820 | 840 | - |
| 14 | g14214.t1 | Gene3D | G3DSA:3.40.1360.10 | - | 650 | 864 | 3.2E-69 |
| 2 | g14214.t1 | PANTHER | PTHR10848 | MEIOTIC RECOMBINATION PROTEIN SPO11 | 519 | 860 | 3.0E-88 |
| 3 | g14214.t1 | PANTHER | PTHR10848:SF0 | MEIOTIC RECOMBINATION PROTEIN SPO11 | 519 | 860 | 3.0E-88 |
| 11 | g14214.t1 | PRINTS | PR01550 | DNA topoisomerase VI subunit A family signature | 609 | 620 | 1.8E-29 |
| 5 | g14214.t1 | PRINTS | PR01551 | SPO11 homologue signature | 615 | 635 | 1.6E-9 |
| 9 | g14214.t1 | PRINTS | PR01550 | DNA topoisomerase VI subunit A family signature | 623 | 640 | 1.8E-29 |
| 12 | g14214.t1 | PRINTS | PR01550 | DNA topoisomerase VI subunit A family signature | 641 | 656 | 1.8E-29 |
| 7 | g14214.t1 | PRINTS | PR01551 | SPO11 homologue signature | 708 | 723 | 1.6E-9 |
| 10 | g14214.t1 | PRINTS | PR01550 | DNA topoisomerase VI subunit A family signature | 718 | 739 | 1.8E-29 |
| 8 | g14214.t1 | PRINTS | PR01550 | DNA topoisomerase VI subunit A family signature | 750 | 766 | 1.8E-29 |
| 6 | g14214.t1 | PRINTS | PR01551 | SPO11 homologue signature | 755 | 774 | 1.6E-9 |
| 4 | g14214.t1 | PRINTS | PR01551 | SPO11 homologue signature | 846 | 865 | 1.6E-9 |
| 1 | g14214.t1 | Pfam | PF04406 | Type IIB DNA topoisomerase | 585 | 646 | 1.6E-14 |
| 13 | g14214.t1 | SUPERFAMILY | SSF56726 | DNA topoisomerase IV, alpha subunit | 585 | 864 | 1.27E-75 |
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:0003677 | DNA binding | MF |
| GO:0005524 | ATP binding | MF |
| GO:0005694 | chromosome | CC |
| GO:0003824 | catalytic activity | MF |
| GO:0016889 | endodeoxyribonuclease activity, producing 3’-phosphomonoesters | MF |
| GO:0006259 | DNA metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K10878 (meiotic recombination protein SPO11)
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.
