Sequence
atgc intronic sequence ATGC exonic sequence...gtttggacatgaagttaaatattaataaatccttccaaaaatgataattatagagcttttattacttatcattttcacttttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0207g00100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g66920.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------------------------------gtttggacatgaagttaaatattaa----taaatccttccaaaaatgataattatag-agcttttattacttatcattttcacttt-tttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
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gtcagtgcttcaagttatgcatgattgaatgtcttcaacttgtcatttcgaggaaaaatgcgttcatattatttatacatggtcctgtagttaaacttttagtgccaaattctgtttgcaatcatttttttaataacattgacgtaatattaatatggtcagatttatgaaattatctgcagAACAGTGGCCGGAAGCATCTGTTTGTTGGCTTTGATAGCACAATGGAGATTGGTCTTAGAGGACCGACAAATCTATTTGGGCATCCAACTGACAAGCAAC
upper sequence: Vv00s0207g00100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G064723_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------gtttggacatgaagttaaatattaataaatccttccaaaaatgataattatag-agcttttattacttatcattttcactt--ttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
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gtcagtagtttctctatgtatgatcgatacttatcttgtgcaggaagaatgatactgtacttatttcattgccatcttgtagttcaagtgtgttgttctttgttatatatagtg-ttatggcaatttcttttagaatacgcttgaagctgcatttatgaatgatc-tgcagAATAGTGGTCGGAAGCATCTGTTTGTTGGCTTTGATAGCACAATGGAGATTGGTCTTAGAGGTCCAACCAATCTATTTGGACATCCAACTGACAAGCAGA
upper sequence: Vv00s0207g00100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G47990.1 (Glycine max), 3'ss of exon 3
---gtttggacatgaagttaaatattaataaatccttccaaaa-atgataattatagagcttttattacttatcattttcacttttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
|| || | ||| || || || | | || ||| | | || | | | | || || | | |||||||| || ||||| | | |||| ||||||||||||||| ||||||||||||||| | ||| |||||||| ||||| ||||||||||||||||| ||||| ||| ||
gagaatttgagagctctctaacagttggcttatttttttatattattatattgcttgatgctatgatgttcttc-cttactcatttttatgt---atcacacagACTCGAGACTGGAAACATCTCTTTGTTGGGTTTGATAGCACAATGTTAACTGGCTTACGAGGTCCAACGAATCTTTTTGGGCATCCCACTGATCAATTAC
upper sequence: Vv00s0207g00100.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G03305.1 (Arabidopsis thaliana), 3'ss of exon 2
----gtt-tggacatgaagttaaatat-taataaatccttccaaaaatgataattat----agagcttttattacttatcattttcacttttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
||| || | || | | || | | || | || | || | | | || ||| | | | || || | || | || | ||||| | | | | || ||||| ||||| || ||||| | ||||||| |||||| ||||| |||||||| ||||| ||||||||||| ||||| |||| |
gttggttatgctctcccagcctggtctatagtttgttctcttgattattttggttgtgatgaaaagttatatgttacagtgtgctaacggttctgtgttttgttatacagACTAGCGAACGTAAACATCTGTTTGTCGGTATTGACACCACAATGCATATTGGATTACGCGGCCCAACAAATCTCTTTGGGCATCCAACTGATGAACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatagagcttttattacttatcattttcacttttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
cttttttatgctcc CT-rich tract
ttttattacttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggacatgaagttaaatattaataaatccttccaaaaatgataattatagagcttttattacttatcattttcacttttttatgctccattgtgtagACTGGTGGAAGGAAGCATCTCTTTGTTGGGATTGATAGCACAATGTCTATTGGTTTACGAGGCCCAACTAATCTTTTTGGGCATCCGACTGACCAACTAT
- - ggacatg
- - - - - - - - - - - -aataaat
- - - - - - - - - - - - - - - ccttcca
- - - - - - - - - - - - - - - - - - -aaaatga