Sequence
atgc intronic sequence ATGC exonic sequencegtaaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g66730.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g66730.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G173989_T03 (Zea mays), 3'ss of exon 1
gtaaggacattacatactagcattcttcaatgcagttgcattattttcttat---attttgta--------aattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
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gtgaggataatacaccttgccctccattgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatagGTTGTTAAGTTCCCCAACGTGTCCAGTTCTGGAGGTCCTTGGGAAAAAACTGTCGTTTGAGATTGCTGTTGGACTCAATGGTCGAGTCTGG
upper sequence: LOC_Os01g66730.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G540589_T01 (Zea mays), 3'ss of exon 6
gtaaggacattacatactagcattc--ttcaatgcagttgcattattttctta--tattttgtaaatt--------gttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGG--AAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
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gtgaggacaacacac-ctcgtactcgatttagt-cactagcattgttttttttgttagattgtgaatttgacattagctgcttatagGTTGTTAAGTACGCCAACATGTCCAGTTCTGGAGGCCCTTGGGAAAAAAAACTGTCGTTTGAGATTGCTGTTGGAATCAATGGTCGAGTCTGG
upper sequence: LOC_Os01g66730.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM5G802854_T01 (Zea mays), 3'ss of exon 8
gtaaggacattacatactagcattcttcaatgcagttgcattattttcttat---attttgta--------aattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
|| |||| | |||| | | | | | | || | ||| |||| || | |||||| | | ||| ||| ||||||||||||||| ||||| ||||||||||| |||| |||||| |||||||| || ||||||||||||||||| || ||||| |||||||||
gtgaggataatacaccttgccctccgttgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatagGTTGTTAAGTTCCCCAACGTGTCCAGTTCTGGAGGTCCTTGGGAAAAAACTGTCGTTTGAGATTGCTGTTGGACTCAATGGTCGAGTCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
attattttcttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT