Sequence
atgc intronic sequence ATGC exonic sequence...aattagatacctggcatgcaacacatatttttcagcttactgtgattagtttataaacctatcatctatactcatgattataatactttttatttgtcagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
Basic information
species | Glycine max |
transcript | GLYMA20G35720.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G464000_T02 (Zea mays), 3'ss of exon 8
aattagatacctggcatgcaacacatatttttcagcttactgtgattagtttataaacctatcatctatactcatgattataatactttttatttg---tcagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
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aaatatgctcttagttgtttgcttgtataaattagtctcctgt--ttagtt-acaagctatttttattgacttttttttgtatgttctgacaccttccttcagGTTAAAATATAGTATAAGCATTGTGGCAGACAAGGGATTGAAAAAGTCACTTTATACTTCTGCTAGACTGAAGAAAGGAGAAGTAATATATTTGGAGACA
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G08450.3 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------------------aattagatacctggcatgcaacacatattttt--cagcttactgtgattagtttataaacctatcatctatactcatgattataatactttttatttgtcagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
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gtaactctctgtcaataatctccaaatacttcaaaaattgttcacagaatttcctaaatttatcagaaatctttgtcacctaaaagttatcag---acgcaagggtcagttttacttacg--catcgatctacttgtctg-cagGATTAAATATAGCATAAGCATTGTTGCTGATAAAGGTCTCAAGAAGCCTCTTTTCACCTCTGCCCGCTTGAAGAAAGGGGAAGTTTTGTACTTAGAAACT
upper sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 8
aattagatacctggcat--gcaacacatatttttcagcttactgtgatt--agtttataaacctatcatctatactcat-gattataatactttttatt-tgt-cagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
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-----gatagcaaggactaacatttgatgttttatgggttcctttgattctatcttttaaatgaatggt--gttctcgtcaattttcatgcttgcaaaaatgtacagGATTAAATACAGCATAAGCATTGTTGCTGACAAAGGCCTAAAGAAGCCCCTTTATACATCTGCACGCTTGAAGAAGGGAGAAGTTTTGTATTTAGAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtttataaacctatcatctatactcatgattataatactttttatttgtcagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
ctttttattt CT-rich tract
tatactcatgattata TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattagatacctggcatgcaacacatatttttcagcttactgtgattagtttataaacctatcatctatactcatgattataatactttttatttgtcagGATAAAGTATAGTATAAGCACTGTTGCTGACAAGGGTTTAAAAAAGCCACTTTACACATCTGCACGTTTGAAGAAGGGGGAAGTTTTGTATTTGGAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - ggcatgc
- - - - - - - - - -aacacat
- - - - - - - - - - - - - - - - - -cttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcatga