Sequence
atgc intronic sequence ATGC exonic sequence...actttggaactgtaattaaccagtgcttactgctttcaggttctctttccagatcacaatttaattatttaattttttgtttattttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G454571_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 3'ss of exon 1
--actttggaactgtaatt--aaccagtgcttactgctttcaggttctctttccagatcacaatttaattatttaattttttgtttattttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
| | | || ||| || || | ||| ||||| || |||||| | | || || || | |||| ||||| ||| | | | ||||| |||| |||| || ||| |||| || || |||||||||||||| |||||||| ||||| | || || || ||||| ||||||||||| ||||||
ctaaagtacatatgcaatcagaaacaattgtta-tgcttcagttttgtctttct---ttataacacaagtaactcatttgatgtttcctttcttcattctgaagATCTTAGGGGTTGAGAGGACAGCTTCACAGCAGGAAATAAAGAAGGCTTATCACAAGTTGGCCTTACGTCTTCATCCAGACAAGAATCCTGGAGATGAG
upper sequence: GRMZM2G454571_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 1
------------------------actttggaactgtaat--taaccagtgcttactgctttcaggttctctttccagatcacaatttaattatttaatt-ttttgttta----ttttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG-
|||| | | | ||| | || | |||| ||| || | | | | ||| | || ||||||| | || | || || |||| || || | || || | ||||| || ||||||||||||||||| |||| ||||| |||| || ||||| |||||||| ||||| |||||
gtaccctaaaaaattcatgctttttctttcgctttcctttgataatggattatttcactattcaaattcaattcgcgtgttgttactgtgatatattatgactttgtttgacggtggttgagtggttgtagGTTCTTGGCGTGGAGAGAACGGCGTCTCAGCAGGAAATAAAGAAGGCGTACTACAAGTTGGCGTTGCGGCTTCACCCCGATAAGAACCCTGGTGATGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccagatcacaatttaattatttaattttttgtttattttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
atttaat putative branch site (score: 4)
ttttttatc putative PPT
aatttaattatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttggaactgtaattaaccagtgcttactgctttcaggttctctttccagatcacaatttaattatttaattttttgtttattttttatcatttaaagATTCTAGGAGTTGGGAAGACCACTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG
- - - - - - - - - - - -tgcttac
- - - - - - - - - - - - - - - tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - atcacaa