Sequence
atgc intronic sequence ATGC exonic sequencegtactttttccttgagcctacatgtctcaggaccattctgacagctaaaataatttttattttaacatagaacaccaatggattgattacttgttccagatgtttaattgctactgttattacagaaagatattaaaatacaacttttgattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G085602_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g56820.1 (Oryza sativa), 3'ss of exon 4
gtactttttccttgagcctacatgtctcaggaccattctgacagctaaaataatttttattttaacatagaacaccaatggattgattacttgttccagatgtttaattgctactgttat-tacagaaagatattaaaatacaacttttgat-----tgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
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---------------------------------------------------------tatggtgacatac--tttttgtgtattga--acttat---gattggctgctttgtaatgctatgcttggaatactatgaaaagttaacttttgttttatatgtatagGACTTTATGGCCCTCCTAGCTTATGAAGAGCCTGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGTACAGGCAGAATGTTGCAGATAGCTTGAATC
upper sequence: GRMZM2G085602_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G03120.1 (Glycine max), 3'ss of exon 4
gtactttttccttgagcctacatgtctcaggaccattctgacagctaaaataatttttattttaacatagaacaccaatggattgattacttgttccagatgtttaattgctactgt-tattacagaaagatattaaa-atacaacttttgattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
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----------------------------------------------------------------------------------gtatgttcgcattttgaatagcttttttatgttgtgtgtggttgagactgaataattatttagctgccaatgttgcagGACTTTATGGCCCTTCTTGCTTATAAGGAGCCAGAGAAATCCCCAATGTTTCATCTCCTTAGCTTAGAGTATCGGCAACAGGTTGCAGATAGTTTGAATC
upper sequence: GRMZM2G085602_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G03080.1 (Glycine max), 3'ss of exon 4
gtactttttccttgagcctacatgtctcaggaccattctgacagctaaaataatttttattttaacatagaacaccaatggattgattacttgttccagatgtttaattgc-tactgttattacagaa-agatattaaaatacaacttttgattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
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--------------------------------------------------------gtatgttcgcattttgca----tagtttttttttttgtgtcgtgtgtgtgtttttgtgtggttaagattgaataaatattaagctgcatgt--------tgcagGACTTTATGGCCCTTCTTGCTTATAAGGAGCCAGAGAAATCCCCAATGTTTCATCTCCTTAGCTTAGAGTATCGGCAACAGGTTGCAGATAGTTTGAATCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|211435652|gb|FL005830.1|FL005830EST: AAAAATTGACATCATTTCAGAAGGTTACCAAGTATATTGAGAAACTAGAG GACTTTATGGCCCTCCTGGCTTATGAAGAGCCTGAGAAGTCACCTATGTTT
genomic: AAAAATTGACATCATTTCAGAAGGTTACCAAGTATATTGAGAAACTAGAGgtactttttc ... gattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTT
EST:
gi|91874350|gb|EB404307.1|EB404307EST: AAAAATTGACATCATTTCAGAAGGTTACCAAGTATATTGAGAAACTAGAG GACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTT
genomic: AAAAATTGACATCATTTCAGAAGGTTACCAAGTATATTGAGAAACTAGAGgtactttttc ... gattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattgctactgttattacagaaagatattaaaatacaacttttgattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
ttttgat putative branch site (score: 4)
atattaaaatacaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttttccttgagcctacatgtctcaggaccattctgacagctaaaataatttttattttaacatagaacaccaatggattgattacttgttccagatgtttaattgctactgttattacagaaagatattaaaatacaacttttgattgtatagGACTTTATGGCCCTCCTGGCTTATGAAGAGCCGGAGAAGTCACCTATGTTTCATCTACTAAGCCCAGAGCACAGGCAGAATGTTGCAGAGGGCTTGAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA