Sequence
atgc intronic sequence ATGC exonic sequence...actattatatgcaggaaggaacgagctcatttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g56880.1 (Oryza sativa), 3'ss of exon 5
actattatatgcaggaaggaacgagctcatttcagctt-gtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtct-tatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
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cacactgtacataacaatgaacttattaacttatactccatttgttgattgct--aatagatggaataagataatttatcagttcttctgtttctttcccagGAAAGTATACTCCTCAGTACAAGTGGCTTGAAGCTGAGTTTCCCAAGGTTAACAGGAGTGAAACGCCATGGTTGATAGTGCTATTGCATGCTCCGTGGTA
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G093101_T01 (Zea mays), 3'ss of exon 5
actattatatgcaggaaggaacgagctcatttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaa-tgtttttatatgtcttatgc----ttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
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aaaataatacactgtca---atatgcacatatgtgctggttg-ctactagctagaatggatagggtgatttatctataaataaatg-ctaatgttccttttccagGAAAATACACTCCTCAGTACAAGTGGCTTGAAGCTGAATTTCCCAAGGTCAACAGGAGCGAAACGCCATGGTTGGTTGTCCTCATGCATGCTCCATGGTA
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G01000.1 (Glycine max), 3'ss of exon 5
-----actattatatgcaggaaggaacgagctcat--ttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
|| ||| ||| || | | ||| | | || | | ||||| ||||| | |||| ||| | || |||||||||||||| || || ||||| |||||||||||||||||||| ||||||||||||| ||||| || ||| | |||||||| |||||||| || |||||
gctgttctgttactacttggattaaatgcacacataatctgagatatcatt---gtttttaaagtggtatc----tcttttgttacaataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAAAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTCATGCATTCACCTTGGTA
upper sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G36360.1 (Glycine max), 3'ss of exon 5
-----actattatatgcaggaaggaacgagctcatttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
|| ||| ||| || | | | | | ||| | | ||||| || || | |||| | ||| | || |||||||||||||| || || ||||| ||||||||| |||||||||| ||||||||||||| ||||| || ||| | |||||||| |||||||| || |||||
ctgccgctgttactgcttggattaaatgcacataatctgtgatatcc-ctgtttttttaaagtgatatc----tcttttgttataataatcttccattttctcagGAAAATATACACCACAATATAAATGGCTTGAAGAGGAGCTACCGAAAGTTAACAGGACAGAGACTCCTTGGTTGATTGTTCTGATGCATTCACCTTGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
tgcttttc CT-rich tract
ttaaattggtaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actattatatgcaggaaggaacgagctcatttcagcttgtcctccaaatgcttaaattggtaaaaaaattgaatgtttttatatgtcttatgcttttcagGAAAATATACTCCTCAGTATAAGTGGCTTGAAAAGGAGCTACCAAAAGTTAACAGGAGTGAGACACCATGGCTAATTGTTCTTATGCATTCCCCATGGTA
- - - - - gcaggaa
- - - - - - - - - - - - - - - - cagcttg
- - - - - - - - - - - - - - - - - - - -tcctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa