Sequence
atgc intronic sequence ATGC exonic sequence...tggctgttgagaatgatttttctgttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 5
tggctgttgagaatgatttttctg-ttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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tctgttttgtaaactgtaataatgctcctggtggaacttgtgcattaactgtacaatgtattt-ttgagaggagctaacttttgcgtccatcgtttgacagAGTAAGGCTAAAGCTGAAAAGAATCAAGCTATTGGTCATTCTGAGAATGAGAACTCTTGCCAGCTCTGTAGAGTAGAGAAACTTACTTTTGAACCTCCAC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 5
tggctgttgagaatgat-ttttctg----ttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
||| | | | | | |||| || || | | || | ||| ||| |||| | || | || | | |||| | | || ||| |||||||||| || || |||||||||||||| || | | ||| || ||||||||||| ||||| ||| ||| ||||| |||||||||||||||||||
-----gttcatacttctatcttctaatgcttctggtggaacttgtgcctttatcatacattgtattttttgagaggagctaacttttacatgttccatttgacagAGCAAGGCTAAAGCTGAAAAGAATCAAGCTATTGGTCATTCTGAGAACGAGAACTCTTGCCAGCTCTGTAGAGTAGAGAAACTTACTTTTGAACCTCCAC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 8
tggctgttgagaatgatttttctgttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctc-ttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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tactagtttttaattgttcatgtggcatatttcctacatagtatttctctaattatatctggtatccaca-tgttaccataacatcattttcttgtcacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTTGAGAAGCTTACCTTTGAACCACCGC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 6
tggctgttgagaatgatttttctgttttgtttttatt-tttattttttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttct---agAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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taaggtttgggtaagcatt----atattgttcatgtggtatatttcccacataatatttctctatttatccacaagttgtcataacatcatcttcttgtgacagAGCAAGTCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGCCAATTGTGTGCTGTAGAGAAGCTTACCTTTGAACCACCGC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 6
tggctgttgagaatgatttttctgttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctct-tccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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-ttcagttgctgtatgtcctccttaattccttatagtcttatacttctttaattgtcttggtatcctaattttaccgagatgcatctatttattgtgacagAGCAAATCAAAAGCAGAGAAGAATCAAGCAATGGAGCATTCAATGAGTGAGAACTCCTGTCAATTGTGTGCTGTAGAAAAACTAACTTTTGAACCATCCC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 7
tggctgttgagaatgatttttctgttttgtttttatttttat-tttttatgtactttgtctaggtttggtggtgattttttttcctcttcccttt--ttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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---ctgcagtatgaggcttgattgagctgttccgttaaacacatttttccatattttatctaaatagatatttgattaatgattgtccttcatgtgcttgcagAGTAAAGCCAAAGCAGAAAAGAATCAGGCAATGGAGCATTCAATGAGTGAGAATTCCTGCCAACTATGTGCAGTGGAGAAGCTTACCTTTGAGCCACCAC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G16710.2 (Arabidopsis thaliana), 3'ss of exon 7
-------tggctgttgagaatgatttttctgttttgt--ttttatttttattttttatgta---ctttgtctaggt--ttggtggtgattttttttcctcttccctttt--------tctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
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gtttgctattttatttacaaaaagtttacagagaagcaagtctattcatatatctaagatgaatctctagctatgtgatcattgatgaataccttgtcatttaaattttaatgtgtgtgcagAGTAAAGCCAAAGCAGAAAAGAATCAGGCAATGGAGAATTCAATGAGTGAGAATTCCTGCCAGTTATGTGCGGTGGAGAAGCTTACATTTGAGCCACCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
tggtgattttttttcc CT-rich tract
tgatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggctgttgagaatgatttttctgttttgtttttatttttattttttatgtactttgtctaggtttggtggtgattttttttcctcttccctttttctagAGCAAGGCCAAGGCAGAAAAGAATCAAGCAATGGAGCGTTCGATGAGTGAGAACTCTTGTCAGCTGTGTGCAGTTGAGAAGCTTACTTTTGAACCTCCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
tggctgt
- - - - gagaatg
- - - - - - - - - - - - - - - - - - - - - - - tatgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg