Sequence
atgc intronic sequence ATGC exonic sequence...cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaatttgaacattacatgttgccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G152319_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g13790.1 (Oryza sativa), 3'ss of exon 8
--------cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaatttgaacattacatg-ttgccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
|| ||| | || |||| | |||||||||||| || || ||| |||| |||| |||| | ||| | | | |||| | || |||||||| |||||||| ||| | || ||||||||||| ||||||| ||||||||||| || ||||||||| | ||||| || ||||| ||||||||||| |
ttttgcgttatgaattttctatcgtgtctgatata-------ttctgttcagttttc--atatgttagcagtttggacatgatatgacagtcctgtctctttttgacagGATGAACATAATCCACATCTGGAACTCACATTAAGTGCTAGGAAAAAAATATCATCAGTACTAGAACATTTGAACCGCAAGTGGGGCAACTCAAACATTG
upper sequence: GRMZM2G152319_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g56234.1 (Oryza sativa), 3'ss of exon 8
---cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaatttgaacattacatgttgccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
| | | || || | | | || || || | | ||| | || || | || | | | | | ||| | | | |||||||| |||||||| ||| | || |||||| | ||| ||||||| |||||||| ||||| ||||||||||| ||||| || ||||| | ||||||||| |
actaatggaatgtggagtgcaaataacctta--ctagcactatttaccttatgaattttcgatggtgtttgagat-attgatagtcctatcttttttcaacagGATGAACATAATCCACATCTGGAACTCACAGTTAGCGCTAGGAAAAAAATATCTTCTGTACTAGAACATCTTAACCGCAAGTGGGGCAGCTCAAACATTG
upper sequence: GRMZM2G152319_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA16G23840.2 (Glycine max), 3'ss of exon 8
cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaattt----gaacattacatgttgc-cttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
| | ||| || || | | || |||| | || ||| | || | || || ||||| | | | | | ||||| | |||||||| || | ||||| ||| | || || | ||||| |||||||| | |||||||||||||||| ||||||||||| |||| ||| |
---------gtgagtataaaagaaaaccaacaagaatc--ttactttagcaatgtaaaagtgcttttggaaactatcatatctttttctttttttcccctcttagGATAAGCATAATCCACACCTGGAGCTTACACTTAGTACTCGAAAGAAGATATCATCAATTTTAGAACATCTAAACCGTAAATGGGGTAATTCAAGCATAG
upper sequence: GRMZM2G152319_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G05420.1 (Glycine max), 3'ss of exon 9
cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaattt----gaacattacatgtt-gccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
| | ||| || || | | || ||| | | ||| | || | || || ||||| ||| ||| ||||||| | |||||||| || | ||||| ||| | || || | ||||| |||||||| | |||||||||||||||| ||||||||||| |||| ||| |
---------gtgagtataaaagaaaaccaacaagcatc--ttactttagaaatgtaaaattgcttttggaaactatcatatctttatcttttttccccttctcagGATAAGCATAATCCACACCTGGAGCTTACACTTAGTACTCGAAAGAAGATATCATCAATTTTAGAACATCTAAACCGTAAATGGGGTAATTCAAGCATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccaatctgtgagcaatttgaacattacatgttgccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
tgttgccttttctcct CT-rich tract
aatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgcaaacttttctttgtaattgatttggggtcagttctgttcagttctccaatctgtgagcaatttgaacattacatgttgccttttctcctcttatcagGATGACCATAATCCTCATTTAGAGCTCACATTAAGCTCTAGGAAGAAAATATCATCTGTGCTAGAACATCTAAACCGAAAATGGGGTAACTCAAACATCG
- - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - ttctgtt