Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttcttaacaattgttttattgtttttccgtctgttgtagcattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g08950.1 (Oryza sativa), 3'ss of exon 8
gtttgtttcttaacaattgttttattgtttttccgtctgt--tgtagcattggagcaa--ttgctttactgacatagagatatcttg-gcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
||||||| ||| | ||| | ||| || | | | ||| | ||| |||| || | |||| || ||||||| |||||||||||||||| ||||| |||||||||||||||||| ||||||| ||||| || ||||| ||||| || ||||| || ||||| || |||| ||||
gtttgttagctaattgattgtttgctatttcacctttttttttgttgggttgtggcaaccttaccttaccagtgtatgcatatcttttgcagATACTTGGCTCCAGAATATTTCATGCATGGCAAGGTGAATGACAAAATTGATGTATACGCTTTTGGTGTCGTCCTTCTTGAACTCATTTCAGGCAAGAAA
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA04G42390.1 (Glycine max), 3'ss of exon 8
---------gtttgtttcttaacaattgttttattgtttttccgtctgt-tgtagcattgg------------------agcaattgctttac----tgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
|| || | |||| | || || | | || ||| || || ||| | || || || | || | |||| |||||||||||||||||||||||| | ||||| || | || |||||||| ||||| |||||||| || || || ||||| | || || || ||
gtttgtacttttaaaccctgcataattataccatctcccttatgcgtacatgctgcactgagaaagtgtattagaatttagaaatggtcctaaattatgtattacattcatttatgcagTTACTTGGCTCCTGAATACTTCATGTACGGCAAAGTAAATGATAAGATCGATGTCTATGCATTCGGTGTCGTGCTCCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G09620.1 (Glycine max), 3'ss of exon 9
gtttgtttct-taacaattgttttattgtttttccgt-----ctgttgtagcattggagc---aattgctttactgacatagagat--atcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
|||||| | || | | | || | | | | | | || | |||| | ||| | | || | | | | | || || |||| ||| |||||||||||||||||||| ||||||| || |||| || ||||| ||||| || ||||| || ||||| ||||| | || || || ||
gtttgtacttacaattctcacataactgatcattcatacatgcagctgaggaattgcattttaaatagttctaatttctaacacactaatttttgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G12410.1 (Glycine max), 3'ss of exon 8
---------gtttgtttcttaacaattgttttattgtttttccgtctgt-tgtagc----attggagcaattg-------ctttactgacatag---agatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
|| || | || | | || ||| | || || | || ||| ||| | | | | | || | || | |||| |||||||||||||||||||||||| | ||||| || | || || ||||| ||||| |||||||| || || || ||||| | || || || ||
gtttgtacttttaaaccctgcataactataccatcccctttataagtacatgctgccgagagaggtgcatttgaaatggtcctaaattatgtattacactcatttatgcagTTACTTGGCTCCTGAATACTTCATGTACGGCAAAGTAAATGATAAGATTGATGTCTATGCATTCGGTGTCGTGCTCCTTGAGCTTCTTTCAGGGAGAAAG
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G77280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtttcttaacaattgttttattgttt---ttccgtctgttgtag--cattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
|| || | | || ||| | || | || | ||| | || | | || | | | | | | |||||||||||||||| || ||||||||| |||| |||||| | || || ||||||||||| ||||| ||||| || || ||| | | || || || |||
---------gtatgaagtactctaggttttgggtaatgtttcatgaaagttcttgaaaatgttcttgtgctaatcttctg-tttttgtgcagATACTTGGCTCCAGAGTACTTCATGTATGGTAAGGTGAATGATAAGATAGATGTGTATGCATTCGGCGTTGTTCTCCTCGAGTTACTTTCGGGAAGAAAA
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
gtttgtttcttaacaattgttttattgtttttccgtctgttgtagcattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
| |||| || || | | | | | | ||| | | |||| | ||| || |||| || | ||| ||||||||||||||| |||||||||||| |||| |||||| ||||||| ||||| ||||| || ||||||||||| || ||||| | || || || ||
-----gtgtgtaact-ttattctctagctactatatttgtgattg-attgctg-gatttagttggtgacggttccatctgttg-cagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
upper sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------------------gtttgtttcttaaca--attgtttt--attgtttttccgtctgttgtagcattggagcaattgctt--tactgacatag---aga--------tatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
| | | ||| | | |||| ||| | | | || | || ||| ||| | ||| | || ||| | ||| |||| ||| |||||||||||||||||||| ||||||| || | || || ||||| || || || |||||||| || || ||||| | || || || |||
gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccgtctgttgtagcattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
tactgac putative branch site (score: 1)
atatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttcttaacaattgttttattgtttttccgtctgttgtagcattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA