Sequence
atgc intronic sequence ATGC exonic sequence...aatggaattcatgatttaaggattcttgcaattctgagcttatctttttctatttatagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 10
--aatggaattcatgatttaaggattcttgcaattctgagcttatctttttctatttatagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
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acagcgaagctgcttactttttaatgct-gcacgcacaaacttcttatgttatgaa-gtggacaagaattttttctttagctgttctttggtcctcctgcagGTTCTTGCTTATGCACAACAATCAAGAGAAAGGGCAAACAAGGAGCAAGCCTCTCTTGTAGAGAGAATGCATGAATACAAAAAGCAGATAGATCGGGAAA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 10
-------------------------------------------------------------------------------------aatggaattcatgatt---taaggattcttgcaattctgagcttatctttttctatttatagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
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gtaactctcttacccatcacatttcttactgaatggcaatcaccttcatacttttgttttgtaatggttttgtgatttacaatgcatcgcagatcacacttggttatttacaattacagaaatagccccttccttccttttccattttctgaacctgacaaaggttgcttactctccccttt---cagGTTCTTGCTTTTGCACAACAATCAAGAGAAAGGTCTAACTATGAGCAGGCTGCTCTTCTTGAGAGGATGCAAGAGTTCAAACGACAAATTGATCGTGAAA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------aatggaattcatga-----tttaaggattcttgcaattctga--gcttatctttttctattt--atagttgggaactaat-gaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
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gtttggaatcagctttgtctttagacactcattttttggtttctagaagtacatgtcatttataaaaacatttatcaagtggtacattgagggtgattaattggcaaacatttgagtcggtgaaaataaattgattcactccagg-ctagttgttttgcagGTCTTGACTTATGCTCAACAATCAAGAGAAAGGTCCAATTATGAGCAGGCAGCCCTAAATGAAAGAATGCAAGAGTACAAACGACAGATTGATCGGGAGA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 10
------------------------------------------------------------aatggaattcatgatttaaggattcttgcaattctgagcttatctttttctattta--tagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
|| || ||| | ||| | | ||| | || |||| | | || ||| ||| || || || || ||||| ||||||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||| |||||||||| |||| ||||||||||||| || |
gtttggaatcagctttgtctttacacactcattttttggttgttggaagtgcatgccatttataaaaaacatttatcaagtgatacattgagggtga-ttaattggcgaacatttgagtcggtgaaaacaaattgattcactcaaggctagttgttttgcagGTCTTGACTTATGCTCAGCAATCAAGAGAAAGGTCCAATTATGAGCAGGCAGCCCTAAATGAAAGAATGCAAGAGTACAAACGACAGATTGATCGGGAGA
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G13300.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------------aatggaattcatgatttaaggattcttgcaattctgagcttatctttt--tctatttatagttgggaactaat----------gaatcact---gtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
||| || ||| | | | | | | | || ||||| | | || | | ||| || | || ||| | ||| || |||| ||||| ||||| |||||||| |||||||| || || |||||||| ||||| ||||||||||||||||| |||| |||||||||| |||||||||| |
gtcggtttaatgttattttccttttcttcaagtgatagatccctaaatatttggggtttatgtataattctcttctacgactatgtatgaatcttcacatgtgttgaaaacgcggagatagtagcatttagaaaactacttatacatcaactctttttttgtagGTCTTGACATATGCGCAACAATCCAGAGAAAGATCAAATTATGAACAAGCAGCACTTAATGAAAAGATGCAGGAGTACAAAAGACAGGTTGATCGAGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctatttatagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
aactaat putative branch site (score: 2)
ctctcattt putative PPT
tatttatagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatggaattcatgatttaaggattcttgcaattctgagcttatctttttctatttatagttgggaactaatgaatcactgtggctctcatttgttgacagGTTTTGACTTATGCACAACAATCAAGAGAAAGGTCCAAATATGAACAGGCAGCCCTTAATGAAAAGATGCAAGAGTTCAAAAGACAGATTGATCGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
aatggaa
- - - - -catgatt
- - - - - - - - - - - - cttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctcat