Sequence
atgc intronic sequence ATGC exonic sequence...cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 7
--cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
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ttgctgtaaatttttgatcctgaaacaattcttgttcattctgttctatgtgttctg--tggcaacatgcttcacatgttaataaattctgtgcaatttcagAGGTGATCACATGCGCGGAGTTCCACCCAACTCATTGTAATACATTAGCCTATAGTAGCTCGAAGGGCTCTATCAGGCTTATTGATCTGCGGCAATCAGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 7
-cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtattta--tatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
||| | ||| | || | |||| || |||||| | || | | |||| ||| || | || || | ||| | | ||||||||| ||||| || || ||||| |||||| |||||||||||| ||| |||||||||||||| || || || || || ||| ||||| |||| ||||||||
gctttcctttattgtttttatcacatattct---ttgagtttctactggtggcatctttgttgttagctactgatagctatggttttgttctatcacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACCCACTGCAATACGTTGGCATATAGTAGCTCTAAGGGATCCATTCGACTTGTTGATCTGCGCCAATCAGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 7
-cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtattta--tatttattataatattattgaatttgtaat-tgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
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gctttcctttattgtttttatc-acatatccg--ttaagtttctactggtggcatctctgttgttagctgctgatagttattct-ttggttctatgacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACTCATTGCAATACATTGGCGTATAGTAGCTCTAAGGGCTCCATTCGACTTGTTGATCTGCGGCAATCAGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 7
cttgaatagattaagta--tagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
| |||| | | | | || | | | | || | | || || | | | || || | | || |||| |||| ||||||| ||||| || ||||| ||||||||||| || ||||| ||||||||||| |||||| ||||| || || || || || ||| |||| ||||||||
-cagtgaggattgatgacttgggaacctcccaaagtcaagtgt-tatatgaaagtcagccgacttatgatatgagactattgtatttgttttggttgaacagAGGTGATAACATCTGCAGAGTTTCATCCTTCTCATTGCAACATGTTAGCATACAGTAGCAGCAAAGGGTCCATTCGCCTCATCGATATGCGTCAATCAGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S138_11V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------cttgaatagattaagtat---agctgtct-ttctgattta-tgtttctgattgta-----acttggtt-gtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
||||| || || | | || | ||||| || ||||| | | ||| || || | || | |||| | | | | | | ||| | ||||||| ||||| |||||||| ||||| ||| | || |||||| || |||||||||||||| ||||| || ||||| || ||||| |||| || |||||
gtactgttccgcagactgccttccttggaagacgtcgacataataggatatgtttttgattcgtttactctgaaatagtgtttgtcgtagtacgaggacgaggctagttggtgcctttaattcactgggttggctgtcgtatgtacagAGGTCATAACGTCAGCAGAGTTTCACCCTACGCATTGCAATGTGCTAGCATATAGTAGCAGTAAAGGGTCTATCCGGCTCATTGACATGCGCCAGTCAGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 7
cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
||| | | | ||| | | || | | | || | || | || | |||| |||||||| || ||||| || ||||| ||||||||||||| | || ||||| |||||||| || |||| |||||||| ||| |||||||||| ||
---------------------------------gtatagtcgcatctccggttcagtttt--tcatgtctgacaggatgatgttaacctt---tgtacagAAGTTATAACGTCTGCAGAGTTCCATCCCTCCCACTGCAATACTCTTGCTTATAGCAGCTCAAAGGGAACAATTCGTCTTATAGATATGCGGCAATCGGC
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 7
cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
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---------------------------------gtatagtcgcatctccgcttcagtttt--tcatgtctgacaggatgatgttaacctt---tgtacagAAGTTATAACGTCTGCAGAGTTCCATCCCTCCCACTGCAATACTCTTGCTTATAGCAGCTCAAAGGGAACAATTCGTCTTATAGATATGCGGCAATCGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
ttgtatttatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgaatagattaagtatagctgtctttctgatttatgtttctgattgtaacttggttgtatttatatttattataatattattgaatttgtaattgcagAGGTTATAACTTCAGCAGAATTTCATCCTTCCCACTGCAATATGTTAGCATATAGTAGCTCAAAAGGCTCAATCCGTCTTATTGATTTGCGGCAATCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- -gaataga
- - - - - - - - - - - - ctttctg
- - - - - - - - - - - - - - - - - - - - -ctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgt