Sequence
atgc intronic sequence ATGC exonic sequencegtaaggattacgctcgaggctgctccacgattttcgtctgtccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g35090.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------gtaaggattacgctcgaggctgctccacgattttcgtctgtccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
|| | | || | |||||| | || | || ||| | | ||| |||| ||| | |||||||||||| |||||||||||||||||||||||||||||||||||| | |
gtaaacgcgcgaagctctgaatccatcctctgttcctcgcggtctcgcgtgcgtgccgtgctgcttgctggttgatgctaatctcctc--actcgcgtttcgcctgt--ttgttgttgcagATCATCCCGAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCCAAG---------------------------------------------------
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g34460.1 (Oryza sativa), 3'ss of exon 1
gtaaggat-tacgctcgaggc-----tgctccacgattttcgtctgtccccttttgccagtgttaatactgta-------tttgctaccgc-agATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
||| | || | || | | || || || | || | | | | | || ||| ||| | | | |||||||||||||||||||||| |||||||||||||||||||||||| | |
gtacgcatctgagcccaaaatcaatgtgtcccgtcggttcaattcgttggtgaatactggcgctgatgttgtggtgtttttttttttctgttagATCATCCCCAAGAAGAACCGGAATGAGATCTGCAAGTACCTCTTCCAAG---------------------------------------------------
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G02070.1 (Glycine max), 3'ss of exon 1
-------------------------gtaaggattacgctcgaggctgctccacgattttcgtctgtccccttttgcc--agtgttaatact-------gtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
| | ||| ||||| || | || || | | ||| | || || | || ||| || |||||||| || ||||||||||||| ||||||||||| ||||||||| | |
gtacgtcgtcaatttcttactcgttttgaaatttaatctcgattctcttgcatcgttcggtacaattttttttcactctgatgcaaaaatctgcgtgcgtgtttacttgttcagATCATTCCTGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG---------------------------------------------------
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G37470.1 (Glycine max), 3'ss of exon 1
------------------------gtaaggattacgctcgaggctgctccacgattt---tcgtctgtccccttttgcc--agtgttaatact-------gtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
| ||| ||||| | | || ||| || | | | ||| | || || | | || ||| | ||||||||||| ||||||||||||| ||||||||||| ||||||||| | |
gtacgtcgtcaatttcttactcgtttggaatttaatctcgattcctttgcatcgtttcgttcattttttttttttcactctgatgcaaacatttgcgtgcgtgtttatttgttcagATCATCCCGGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG---------------------------------------------------
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
--------gtaaggattacgctcgaggctgctccacgattttcgtctgt-----ccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
| | ||| |||| | || | || | ||| ||| | | |||| || || | ||||||||| ||| |||||||||| || ||||||||||| ||||||||| | |
gtatccgaacgaacttggtcctcttagctgtttcataggtaataatggtggaatcagcttatgcaaatcctaat-ttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG---------------------------------------------------
upper sequence: GRMZM2G043737_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G43110.1 (Glycine max), 3'ss of exon 1
gtaag-gattacgctcgaggctgctccacgattttcgtctgtccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
|||| || | || |||| || || ||| ||| | | |||| || || | ||||||||| ||| |||||||||| || ||||||||||| ||||||||| | |
gtaaccgaacttggtcctcttagctctttcatacggtggaatcagcttatgcaaatcctaat-ttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG--------------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacgattttcgtctgtccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
tgttaat putative branch site (score: 3)
ttaatactgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggattacgctcgaggctgctccacgattttcgtctgtccccttttgccagtgttaatactgtatttgctaccgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGGGTATGTGGTTCTTGGTCCACTAGACTCGCAGTAGGGTAACCTGGGCTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT