Sequence
atgc intronic sequence ATGC exonic sequence...atttgtgcacaaatgttttactagtgtgtcttaatgtttcaaaagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G154165_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------atttgtgcacaaatg---ttttactagtg-tgtcttaatgtttcaa----aagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
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gtgagcactatttggaatggaaccattttgcacctattactacatgatggaggagtttctcatgctggttaatggctatacaaaaatggaatttcttcattgctgtaacatttgtttaattttactctgttaatctcaatgccataaaaattcacaaatgacgctactttgttggtttcagTTTTTGACAAAGAATGGGATATATGATTTCTGGAACTGGTTTGATGATCGAACTTG
upper sequence: GRMZM2G154165_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------------------atttgtgcacaaatgttttactagtg--tgtcttaatgtttcaa----aagcagttgtgcaca-tgcacttaaattttg--attcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
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gtgagcactatttggaatggaaccattttgcacctattggtcttactattgggatggtggaggagtctcttatgctggttaatggcaatagaaaaatggattcttttttcatggctgtaacatttgttcaattttactctgttaatctcaatgccataaaaattcacaaatgatgacacaactttgttggtttcagTTTTTGACAAAGAATGGGATATACGATTTCTGGAACTGGTTTGATGATCGAACTTG
upper sequence: GRMZM2G154165_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 2
atttgtgcacaaatgtt-ttactagtgtgt----cttaatgtttcaaaagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
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gttcactctcttttcttatttccaggatgttaatcttagctttgggcgagttctccttttaattt-ctgagattgcggtcctatttaatttgttgtttatttcagTTCTTATCGAAGAATGGAATATACGAGTTCTGGAATTGGTTTGATGATAGGACCTG
upper sequence: GRMZM2G154165_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 2
atttgtgcacaaa---tgttttactagt-gtgtcttaatgtttcaaaagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
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-tttgtttccaaaatctgttgcatgactcacttccttttgttttttattttatttt--atttaaaattgtattgaagctgag-atgcatgtttgttgatttcagTTTCTCACAAAGAACGGAATATATGACTTTTGGAACTGGTTTGATGATCGAACCTGMapped 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|71446808|gb|DR827858.1|DR827858EST: AAAGCGTCATCCACGAGTTCGATCCCTACTTCAATTACCGCGTTACCCAG TTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGA
genomic: AAAGCGTCATCCACGAGTTCGATCCCTACTTCAATTACCGCGTTACCCAGgttttttccc ... cttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGA
EST:
gi|71447977|gb|DR829027.1|DR829027EST: AAAGCGTCATCCACGAGTTCGATCCCTACTTCAATTACCGCGTTACCCAG TTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGA
genomic: AAAGCGTCATCCACGAGTTCGATCCCTACTTCAATTACCGCGTTACCCAGgttttttccc ... cttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
ttttgat putative branch site (score: 4)
tttcccccttgtctc putative PPT
ttaaattttgattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttgtgcacaaatgttttactagtgtgtcttaatgtttcaaaagcagttgtgcacatgcacttaaattttgattcattgtaatttcccccttgtctcagTTCTTGTCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG
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