Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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-----------------------------------------------------------gtttgtttcttaaca--attgtttt--attgtttttccgtctgttgtagcattggagcaattgctt--tactgacatag---aga--------tatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G09620.1 (Glycine max), 3'ss of exon 9
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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------------------------------------------------gtttgtacttacaattctcacataactgatcattcatacatgcagctgaggaattgcattttaaatagttctaatttctaac--------------acactaatttt---tgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G24660.1 (Glycine max), 3'ss of exon 9
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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------------------------------------------------------gtttgtactttcaat---tctcatattactgaac----attcatacatgctgcgtacagaaattgc-atttaaagtagctctaatttctaacacac-ttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G12410.1 (Glycine max), 3'ss of exon 8
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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-----------------------------------------------gtttgtacttttaaaccctgcataactataccatcccct-ttataagtacatgctgccgagagaggtgcatttgaaatggtcctaaatta-tgtattacactcattta---tgcagTTACTTGGCTCCTGAATACTTCATGTACGGCAAAGTAAATGATAAGATTGATGTCTATGCATTCGGTGTCGTGCTCCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G42390.1 (Glycine max), 3'ss of exon 8
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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--------------------------------------gtttgtacttttaaaccctgcataattataccatctcccttatgcgtacatgctgcactgagaaagtgtattagaat-ttagaaatggtcctaaattatgt--attacattcattta---tgcagTTACTTGGCTCCTGAATACTTCATGTACGGCAAAGTAAATGATAAGATCGATGTCTATGCATTCGGTGTCGTGCTCCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G77280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
||| | | | | | ||| | || | | || | | |||| | || || | | | | | |||| | ||||| ||| ||||||| || |||||||||||||| || || ||||| ||||||||||| || ||||| || ||||| ||||| ||| | |||||||||||||||
-----------------------------------------------------------------------------gtatgaagtactctaggttttgggtaatgtttcatgaa---agttcttgaaaatgttcttgtgctaatcttctgtttt-tgtgcagATACTTGGCTCCAGAGTACTTCATGTATGGTAAGGTGAATGATAAGATAGATGTGTATGCATTCGGCGTTGTTCTCCTCGAGTTACTTTCGGGAAGAAAA
upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S249_93V6.1 (Physcomitrella patens), 3'ss of exon 7
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
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----------------------------------------gtatctacagcctttccccaattatcgctgaaactcag-acattgt-ctgtcttttctgtgttttgaacacagcaat-----------atggaaaatttctgatctaagagtgacctctgcagATATCTCGCACCTGAATACTTCATGTATGGGAGAGTGAACAACAAGACTGATGTCTACGCTTTTGGCGTTGTACTGCTTGAGCTCATAACCGGTCGGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
catttattttctct CT-rich tract
agaacatttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA