Sequence
atgc intronic sequence ATGC exonic sequencegtaaaataaaaataaaatagccagacagtcgtgcaattcctatcgctaccgcttttaatttaataacatgtgttaatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G395549_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 26
gtaaaataaaaataaaatagccagacagtcgtgcaattcctatcgctaccgcttttaattt-aataacatgtgtt---aatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
||||| | | | || | | | || || | | || ||||| ||| |||||| || ||| |||| |||||| |||||||||||||||| ||||||||||||||||| |||||||||||||||||||||| ||| |||||||| || ||||| || |||||||||||||
gtaaagcgattagatgattgtactgct-tattgatgttatttttccttttttttttattttgaataactaatggctggaatgccttgatcagCTTGAGAAGCATGAATTGCTTGAGATGAGGAGGATCGCTGCCTACATTTACAAGAAGGCTGGCAGATGGAAGCAATCTATTGCCCTGTCGAAGAAAGACA
upper sequence: GRMZM2G395549_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 26
gtaaaataaaaataaaatag--ccagacagtcgtgcaattcctatcgctaccgcttttaatttaataacatgtgtt---aatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
||||| | ||| || | | | | || ||| | | | ||| || |||||| || ||| |||| |||||| |||||||||||||||| ||||||||||||||||| |||||||||||||||||||||| ||| |||||||| || ||||| || |||||||||||||
gtaaagcgattatatgattgtactgcttattgatgttattttt-ccttttttattttattttgaataactaatggctggaatgccttgatcagCTTGAGAAGCATGAATTGCTTGAGATGAGGAGGATCGCTGCCTACATTTACAAGAAGGCTGGCAGATGGAAGCAATCTATTGCCCTGTCGAAGAAAGACA
upper sequence: GRMZM2G395549_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 26
------------------------------gtaaaataaaaataaaatag-ccagacagtcgtgcaattcctatcgctaccgcttttaatttaataacatgtgttaatttat-tgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
| || || || || || |||| || || | || | || || || | ||| | ||||||| || ||||||||||| | || ||||||||| | | || ||||||||||||||||| || | || |||||||| || |||||| | || ||||||||||
gtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgttatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcagATTGAGAAGCATGAACTTCTTGAGATGAGGCGTGTTGCTGCCTACATTTACAAGAAAGCAGGAAGATGGAAGCAATCCATTGCTTTGTCAAAGAAAGACA
upper sequence: GRMZM2G395549_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 26
------------------------------gtaaaataaaaataaaatag-ccagacagtcgtgcaattcctatcgctaccgcttttaatttaataacatgtgttaatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
| || || || | || ||| ||| || || || | || || || | ||| || |||||| || ||||||||||| | || ||||||||| | | || ||||||||||||||||| || | || |||||||| || |||||| | || ||||||||||
gtgaatctcggttatcttttgtcttattttgacaattagcaaaatctgagatcaggaagttatggaaaatttaaaatgtttgaattattattgattggcttcaacaatacat-gagcagATTGAGAAGCATGAACTTCTTGAGATGAGGCGTGTAGCTGCCTACATTTACAAGAAAGCAGGAAGATGGAAGCAATCCATTGCTTTGTCAAAGAAAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattcctatcgctaccgcttttaatttaataacatgtgttaatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
ttttaatttaataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaataaaaataaaatagccagacagtcgtgcaattcctatcgctaccgcttttaatttaataacatgtgttaatttattgagcagCTTCAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGACAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA