Sequence
atgc intronic sequence ATGC exonic sequence...atttggaagagatctttgttaattcttgttgctctctaaagtgagccatatcaatgggaagattatcatatgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15470.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 3
atttggaagagatctttgttaattcttgttgctctctaaagtgagccatatcaatgggaagattatcatatgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
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atagtcacattgtttagactatacagtactgctcttgtataaatattgtgataatggtgattttattgatctttgtaaaaatgttgtgcttcttgggcagATGGAAAAACATGAGAGAGAAATCAGAGAGTCTAAATTTGCAGAGCTGATGAATAAACACTTTGCAGCAAGTTCTATCCCTAAAGGGATTCATTGTCTGT
upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 3
----atttggaagagatctttgttaattcttgttgctctctaaagtgagccatatcaatgggaagattatcata-tgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
|| | | | |||| | | | | || | |||| | | || || ||||| | | || || || | || || | ||||||||||| |||| ||||| | || || || ||||| |||||| |||| || ||||| || ||||||||||||||||| | || ||||| ||||||||||| |
ttattattatcccatagcattgtcatatttatcatgtttcaatagtg-----ttgctatatgataattatattggtctgttacattgcaatgtttttttgaacagATGCAGAAATTTGAGAGAGAAATCAGAGAATCTAAATTTTCAGAGCTGATGAATAAACACTTTGCAGCAAGTTCAGTCCCTAAAGGGATTCATTGTCTGT
upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 3
atttggaagagatctttgt-taattcttgttgctctctaaagtgagccatatcaatgggaagattatcata-tgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
|| | | | | | |||| | || | | || || | | || ||||| | | || || || | || || ||||||||||| |||| ||||| | || || || ||||| |||||| |||| || ||||| || || |||||||||||||| |||| ||||| ||||||||||| |
-ttattattatcccatagcataatcgtatttatcatgtttcaatagtgatgcta-tatgataattatattggtctgttacattgcaatgtttctttgaacagATGCAGAAATTTGAGAGAGAAATCAGAGAATCTAAATTTTCAGAGCTGATGAATAAACATTTTGCAGCAAGTTCAGTTCCTAAAGGGATTCATTGTCTGT
upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 3
atttggaagagatctttgttaattcttgttgctctc-taaagtgagccat-atcaatgggaagattatc-atatgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
| | | | || | || | || ||| || | | || ||||| | |||| || | || | | | | | ||||| |||||||| || |||| | || || || || || ||||||||||| || ||||| || ||||| ||||||||||| || || ||||| ||||||||||| |
--tagtcacattgtttagctatacagtactgttcttgtattaaaaattgtgataaatggtgattttattgatctttgtaaaaatgatgtgct-tcttgggcagATGGAAAAACTTGAGAGAGAAATCAGAGAGTCTAAATTTGCAGAGCTGATGAATAAACACTTCGCAGCAAGTTCTATCCCTAAAGGGATTCATTGTCTGT
upper sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
atttggaagagatctttgttaattcttgtt-----gctctctaaagtgagccatatcaatgggaagattatcatatgtgatatatctctatct-tgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
|||||| ||| |||| || | ||| | | || | | |||| || | || | | ||||| ||| | ||| | |||||||||||| ||||| | ||||| |||||||| || ||||||||| | ||||| || ||||||||||||||| ||||||| ||||||||||| ||||| |
-----ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttg-tttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatatcaatgggaagattatcatatgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
tctctatcttgtctt CT-rich tract
attatcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttggaagagatctttgttaattcttgttgctctctaaagtgagccatatcaatgggaagattatcatatgtgatatatctctatcttgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - -gaagaga
- - - - - - - - - - - - - - - - -ctctaaa
- - - - - - - - - - - - - - - - - - - - - - -ccatatc