Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G124103_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
gtgtgtcgatttatgtttacacgcct--tttttttttttgatctgaaacagttgaggtctatctct---gattctgaattatggattttg--------cccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
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atgtgcc-atatatttttggacttttgatggttttacctggccttc--tgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
upper sequence: GRMZM2G124103_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.1 (Oryza sativa), 3'ss of exon 1
----gtgtgtcgatttatgtttacacgcctttttt--ttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcc-cagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
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tgccatatatttttggacttttgatggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagcagCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG
upper sequence: GRMZM2G124103_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G20310.2 (Glycine max), 3'ss of exon 1
----------------gtgtgtcgatttatgttt-------acacgccttttttttttttgatctgaaacagttgaggtctatct-ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
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ggctatttatttgcgtaattgttgatatatgttgctggaggactcgcttcatgtttactttcttgtagtttcatataacctattaaccatttcttaatagTTAGTGCT-TGTATTCATCACAGAATGGCATCCAACAGGGGTCAAGGTGGAATTCAGCAGTTGTTGGCTGCTGAACAAGAGGCACAACGGATTGTGAATGC-----------
upper sequence: GRMZM2G124103_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G20310.3 (Glycine max), 3'ss of exon 1
----gtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatct-ctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
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tgatatatgttgctggagg---actcgcttcatgtttactttcttgtagtttcatataacctattaaccatttcttaatagttagtgct-tgtattcatcacagAATGGCATCCAACAGGGGTCAAGGTGGAATTCAGCAGTTGTTGGCTGCTGAACAAGAGGCACAACGGATTGTGAATGCTGCAAAAAATGMapped 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|211160741|gb|FL348114.1|FL348114EST: CCGCGTGCCGGAATATCTGGATAACGGCATGGAAGTACACAGCTGGCATT GAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
genomic: CCGCGTGCCGGAATATCTGGATAACGGCATGGAAGTACACAGCTGGCATTgtgtgtcgat ... ttttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
ctctgat putative branch site (score: 4)
ttttgccc putative PPT
tgaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtcgatttatgtttacacgccttttttttttttgatctgaaacagttgaggtctatctctgattctgaattatggattttgcccagGAGCTGAGAGATGGACGCCAACAGGCGCCAAGGTGGGATTCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCGGCTAGAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT