Sequence
atgc intronic sequence ATGC exonic sequence...tttttctaatgatatggattttggggaaaaattgctatattgcattttgcatttgaagagatgcgtgatcaatatgttcttataaaagattctgtagtagGAAGGGAACTTCAGTCCTTCAAAAGATGAAGAGGATCATGCCTTTCTCTTGCAATTGCTTTTCTGGTTTAAGCAATCATTCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g31460.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g31460.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G173416_T03 (Zea mays), 3'ss of exon 5
tttttctaatgatatggattttg--gggaaaaattgctatattgcattttgcatttgaagagatgcgtgatcaatatgttcttataaaagattctgtagtagGAAGGGAACTTCAGTCCTTCAAAAGATGAAGAGGATCATGCCTTTCTCTTGCAATTGCTTTTCTGGTTTAAGCAATCATTCAG
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-tcatctaaacatctaatttttcttaaagaaaattatggatacaaattccatgttttaagagatgggtgttcag-aaattcttacaaatggttgtttagtagGAAGGGAATTTCAATCCTTCGAAAGATGAAGAGAAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAG
upper sequence: LOC_Os07g31460.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G173416_T01 (Zea mays), 3'ss of exon 4
----------------------------------------------------------------------------------------------------tttttctaatgatatggattttg--gggaaaaattgctatattgcattttgcatttgaagagatgcgtgatcaatatgttcttataaaagattctgtagtagGAAGGGAACTTCAGTCCTTCAAAAGATGAAGAGGATCATGCCTTTCTCTTGCAATTGCTTTTCTGGTTTAAGCAATCATTCAG
| ||||| || | |||| |||||| ||| ||| |||||||| ||| ||| | |||||| ||| | || | |||||||||||||| |||| |||||| |||||||||||| | ||||||||||| ||||||||||||| ||||||||||||||||||||
gttttactttattttaccacttctgttattttcttctctctggtatttttttagttttgttccatgcaagatgtattttatgattctcctattgttatcactcatctaaacatctaatttttcttaaagaaaattatggatacaaattccatgttttaagagatgggtgttcag-aaattcttacaaatggttgtttagTAGGAAGGGAATTTCAATCCTTCGAAAGATGAAGAGAAGCATGCCTTTCTGCTGCAATTGCTTTTTTGGTTTAAGCAATCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcatttgaagagatgcgtgatcaatatgttcttataaaagattctgtagtagGAAGGGAACTTCAGTCCTTCAAAAGATGAAGAGGATCATGCCTTTCTCTTGCAATTGCTTTTCTGGTTTAAGCAATCATTCAG
aatatgttcttataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttctaatgatatggattttggggaaaaattgctatattgcattttgcatttgaagagatgcgtgatcaatatgttcttataaaagattctgtagtagGAAGGGAACTTCAGTCCTTCAAAAGATGAAGAGGATCATGCCTTTCTCTTGCAATTGCTTTTCTGGTTTAAGCAATCATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA