Sequence
atgc intronic sequence ATGC exonic sequence...atcttatttataaggcatgggagttttggtcaatgtctgcttccaaaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g01380.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g34860.1 (Oryza sativa), 3'ss of exon 2
-------------------------------------------------------------------------------------------atcttatttataaggcatgggagttttggtcaatgtctgcttcca-aaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
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gtatgagttagcagttggcctgatgtgttcaactgcttattccttcccttttgtgctgatttccactgggctagtgaatttcgctttgtgcacttgtttttctttttttcagattctcgcacaccttgtgtaacagtgtactttgaaccatatgatt----attgctgaccccaaggtcatgcttgctgcagAATTTTGATGATGTCCTGGTCCCTGCTGATCATGTGAGTCGGAGTTACAATGACACATACTATGTTGATGCTCAAACTGTCTTGCGGTGTCATACCAGCG
upper sequence: Vv19s0027g01380.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G078756_T02 (Zea mays), 3'ss of exon 2
--atcttatttataaggcatgggagttttggtcaatgtctgcttccaaaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
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atgtgctgtgtgtttgttcttcagattc--gtacatcttcagggacaatggtatgtggtagtttttggtctctggctgacctataaatgttcttcgctgcagAATTTTGATGATGTCTTGGTCCCTTCTGACCATGTAAGCCGGAGTTACAATGACACATATTATGTTGATGATCAAACAGTCTTAAGGTGTCATACCAGTG
upper sequence: Vv19s0027g01380.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC211349.4_FGT001 (Zea mays), 3'ss of exon 2
--atcttatttataaggcatgggagttttggtcaatgtctgcttccaaaattcttatcca-tatttctgtgaattc--ttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
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tggcttcttccctgatatttgc---ttcaaattcgtgcct--ttacggaaacggtatgtagtagttttgggcctctggctgacctatatatgttctttgctgcagAATTTTGATGATGTCTTGGTCCCTTCTGACCATGTAAGCCGGAGTTACAACGACACATATTATGTTGATGGTCAAACAGTCTTAAGGTGTCATACCAGTG
upper sequence: Vv19s0027g01380.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G52890.1 (Glycine max), 3'ss of exon 3
atcttatttataaggca-tgggagttttggtcaatgtctgcttccaaaattcttatccatatttctgt-gaattctta--tgccagaaat--tttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
|| |||||| | || | |||| | | | ||| | | | | || ||| || |||| | | ||| ||| ||| |||||||||||||||||||||||||||||| || || | |||||||| || |||||||| |||||||| ||| |||| ||||| |||||||||||||| ||||
------ttgataaggtggtttgaactctggttgggtttctttgtgacaatcttcttgtagaattttgttgaggtcttggctccttacaatctttttcttgttgcagAATTTTGATGATGTCTTGGTTCCTGAAGACCATGTAAGTAGGAGCTATAATGATACTTACTACATAGACCCTCAGACTGTTTTGAGGTGCCACACAAGTG
upper sequence: Vv19s0027g01380.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G10060.1 (Glycine max), 3'ss of exon 2
----atcttatttataaggcatgggagttttggtcaatgtctgcttccaaaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
||| ||| | | || | || | | | | | | | | | || | | | || ||| ||||||||||||||| |||||||||||| ||||| || || | ||||| || || |||||||| |||||||| || |||| ||||| || ||||| ||||| ||||
ttttatcccattcaatttgtttgcttatcttatcacttctttttggttcataaggtggtttgaactctggttgggtttctttacaacaat----cttcttgcagAATTTCGATGATGTCTTGTTTCCTGAAGACCATGTAAGTAGAAGCTATAATGATACTTACTACATAGATCCTCAGACTGTTTTAAGGTGTCACACAAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
ttttacttctt CT-rich tract
aaattttacttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttatttataaggcatgggagttttggtcaatgtctgcttccaaaattcttatccatatttctgtgaattcttatgccagaaattttacttcttgcagAATTTTGATGATGTCTTGGTTCCTCCTGATCACATCAGTAGGAGTTACAATGATACATACTACATTGACTCTCAAACTGTCTTGAGGTGCCACACTAGTG
- - - - - - - gcatggg
- - - - - - - - - - - - - - - caatgtc
- - - - - - - - - - - - - - - - - - - gcttcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccagaaa