Sequence
atgc intronic sequence ATGC exonic sequencegtaattatttctttgttgatttcacagctaagctatcagcgctcgttacttatgattgttttggtgattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 9
gtaattatttctttgttgatt-tcacagctaagctatcagcgctcgttacttatgattgttttggtgattgcttt-gtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
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gtgaatactctctcaatgtttatcacttctaaattgtgagtatt-gttacttatattttgttt--ttattgcttttatagATACGGTGGCGGCATGAGCTCAGCAAAAGCAGCACTTGAGAGTGATACAAGA
upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G45990.1 (Glycine max), 3'ss of exon 9
-----gtaattatttctt----tgttgatttcacagctaagctatcagcgctcgttacttatgattgttttgg--tgattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
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gtgtgttggatatgctttaaaatctcatatacatgtttatttttattacattcttttattgacaaggttttgaaatgccttatatgcagATATGGTGGTGGTATGAGTTCTGCAAAAGCTGCTTTAGAAAGTGATACAAGA
upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 8
------gtaattatttctttgttgatttcacagctaagctatcagcgctcgttacttatgattgttttgg--tgattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA-
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tgtgttggatatgctttaaaatctcatacatatttatttttattacattcctttattgacaaggttttgaaatgcctcgagtgcagaTATGGTGGTGGTATGAGTTCTGCAAAAGCTGCTTTAGAAAGTGATACAAGAG
upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 9
-----gtaattatttctttgttgatt-tcacagctaagc-tatcagcgctcgttacttatgattgttttggt---gattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
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gtattttggttatgccatagaaagtccttataattctatgtttcataaatttagactgacaatattcatgatctaaataatgatacagATATGGTGGTGGTATGAGTTCTGCCAAAGCTGCACTGGAGAGTGATACACGA
upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 10
-----gtaattatttctttgttgatttcacagctaagc-tatcagcgctcgttacttatgattgttttggt---gattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
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gtatgttggttatgcatagaaagtccttataattctatgtttcataaatttagactgacaatattcatgatctaaataatgatacagATATGGTGGTGGTATGAGTTCTGCAAAAGCTGCACTGGAGAGTGATACACGAMapped 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|60345537|gb|DN212510.1|DN212510EST: GGTGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCCTGG CTACGGTGGTGGTAT-AGTTCAGCAAAAGCAGCTC
genomic: --TGCTAGTATCTCTTTGACCTACATAGCTTCTGAAAGGATAATTCCTGGgtaattattt ... tgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagctaagctatcagcgctcgttacttatgattgttttggtgattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
ttgcttt CT-rich tract
ttacttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattatttctttgttgatttcacagctaagctatcagcgctcgttacttatgattgttttggtgattgctttgtagCTACGGTGGTGGTATGAGTTCAGCAAAAGCAGCTCTTGAGAGTGATACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC