Sequence
atgc intronic sequence ATGC exonic sequence...cttattttatctggcttgggtcttgttttgatttttggtggcttgatgtctcgaagcaaacaatgcagaaacttatatcatatattggcacaatttgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G175875_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62210.2 (Oryza sativa), 3'ss of exon 3
----cttattttatctggcttgggtcttgttttgatttttggtggcttgatgtctcgaagcaaacaatgcagaaacttatatcatatattggcacaatttgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA----
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aaacgtcttttgatctggctggaatgttgcattgatttatttaagtctatt--cttaaaggtattcgtccagaaacttatct--tttatttgcataaattatagGGCACATTGGATGCAGCAAGACGTGCTTCTGCTTTTGTTCGGGGAGATGATGTTGTTCATAAGCTATTTACAGAGCTAGCCTACCGTTACAAGTAAAACT
upper sequence: GRMZM2G175875_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62210.1 (Oryza sativa), 3'ss of exon 3
----cttattttatctggcttgggtcttgttttgatttttggtggcttgatgtctcgaagcaaacaatgcagaaacttatatcatatattggcacaatttgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA
| ||| |||||||| | | ||| ||||||| | | | | || ||| | | ||||||||||| | | |||| ||| || || ||||| || | ||||||| | ||||||| |||| ||||||||||| |||||||| ||||||||||| || || || || |||||||| ||||
aaacgtcttttgatctggctggaatgttgcattgatttatttaagtctatt--cttaaaggtattcgtccagaaacttatct--tttatttgcataaattatagGGCACATTGGATGCAGCAAGACGTGCTTCTGCTTTTGTTCGGGGAGATGATGTTGTTCATAAGCTATTTACAGAGCTAGCCTACCGTTACAA----
upper sequence: GRMZM2G175875_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g38580.1 (Oryza sativa), 3'ss of exon 3
cttattttatctggcttgggtcttgttttgat-ttttggtggcttgatgt-ctcgaagc--aaacaatgcagaaacttatatcatatattggcacaatt-tgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA
| || | ||| | ||| | || | ||| |||| || | || | | | | | | || | | | | | ||| | |||||||| | ||||||| | |||||| | ||||||||||||||||| |||| ||||| ||| | ||||| || || |||||||||||||
-----atcatgagctaaatgtccttgccagatatattaatctcttaatgttcttactgtcaaagccgttcctatgttaacattagaaagttctattattctatagGGTACGCTTGATGCAGCAAGACGTGCCTCAGCCTTTGTTCGGGGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAA---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtctcgaagcaaacaatgcagaaacttatatcatatattggcacaatttgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA
gcttgat putative branch site (score: 5)
aaacttatatcatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttattttatctggcttgggtcttgttttgatttttggtggcttgatgtctcgaagcaaacaatgcagaaacttatatcatatattggcacaatttgtagGGTACTCAGCATGCAGCGACACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTGTTCACTGATCTGGCCTACCGCTACAGTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - -tggtggc
- - - - - - - - - - - - - - - - - - - - - ttgatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgca