Sequence
atgc intronic sequence ATGC exonic sequencegttgcttatatccttgtggtctgcttatcatagaaagcggtaaactaattgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 3'ss of exon 10
---------gttgcttatatccttgtggtctgcttatcatagaaagcggtaaactaattgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
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gtttgtcttttccattgcatactcatcatagtcttccccttcattattgtaaataaaataccttttttt--tccagAGGAACAAAGCTCCCAATGAGCAAGGAATTCCCTTGCTGATGCCTCATCACCACATGGTAATTCCACATTACAAGGGCATAGGCCAAGAAATTAATAGTG
upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 11
----------------------gttg----cttatatccttgtggtctgcttatcataga----aagcggtaaacta-attgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
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gttagtcttattttgcaattgcattgaagtcttggagcattctggtcctattcctatattccctaaataggaaataatattttttttattaacgtcagAGGAACAAAGCTCCATATGAGCAAGCAATTCCATTACTTATGCCTCAGCATCATATGGTTATTCCACATTACTTGGGAAGAAGCAGAGAGATACAGATTG
upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 11
----------------------gttg----cttatatccttgtggtctgcttatcatag----aaagcggtaaacta-attgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
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gttagtcttattttgcagttgcattgaagtcttgaagcattctggtcctattcctatattcccaaaataggaaataatattttttttattaacatcagAGGAACAAAGCTCCATATGAGCAAGCAATTCCATTACTTATGCCTCAGCATCATATGGTTATTCCACATTACTTGGGAAGAAGCAGAGAGATACAGATTG
upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 12
--------gttgcttatatccttgtggtctgcttatcatagaaagcggtaaactaattgttt-----------ttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
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gttgatgtcttcactacatactccctagttcttctttcaaaagtataataaaccttttatctcaatacaagcatacttttctgcagAGAAATAAAGCTCCAAATGAGCAAGCAATTCCACTACTTATGCCTCAGCAGCACATGGTCATTCCACATTACATGGGAAGGAGCAGAGAGATGGAGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtggtctgcttatcatagaaagcggtaaactaattgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
aactaat putative branch site (score: 2)
ctaattgttttttttt CT-rich tract
taaactaattgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgcttatatccttgtggtctgcttatcatagaaagcggtaaactaattgtttttttttctttcagAGGAACAAAGCTCTAAATGAGCAAGCAATTCCCTTACTGATGCCTCATTACCACATGGTAATTCCACACTACAAGGGTAGAAGCAAAGAAACAAATGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA