Sequence
atgc intronic sequence ATGC exonic sequencegtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163409_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g35580.1 (Oryza sativa), 3'ss of exon 2
gtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttt-tttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
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--------------------------------------aaaaaacctgggattgttgcttatattaatcattgctagtactggtactgcg--actgtgttct--------tacaattttcttgtt--tgctttgctcctta--ttatcgcagCACATCGAAGTGAACAAGCTTACCAAGGGAAGGCCCCTTGACAATCTGGAATTCATGCAATGGATGAAGCGATACTGTGATTCGGTCAATGGAGGCTTCA
upper sequence: GRMZM2G163409_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G39720.1 (Glycine max), 3'ss of exon 2
gtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatctt--attt--ttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
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------------------------------------------------------------------------------gtaacactctccctctgtattttaattttgg-acgatcttgaattcaattactgaattgctcgttgtgttt-ctcagCACATCGAGGTCAGCAAGCTGGTGAAAGGAAGGCCACTGGATAACCTCGAGTTCATGCAATGGATGAAACGATACTGCGATTCTGTCAATTCCGGCCTTC
upper sequence: GRMZM2G163409_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G05560.1 (Glycine max), 3'ss of exon 2
gtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
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-------------------------------------------gtatcactcaacttctctctcgtcttttaatttcatcc---ctgttattctttaattttggacgatcttgatttcagt--taccgaattgttcgttgtatattttcagCACATCGAGGTCAGCAAGCTGGTGAAAGGAAGGCCACTGGATAACCTCGAGTTCATGCAATGGATGAAACGATACTGCGATTCTGTCGATTCCGGCCTTC
upper sequence: GRMZM2G163409_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0129g01080.t01 (Vitis vinifera), 3'ss of exon 2
gtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
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---------------------------------------------------ggttattgatctctctgttagggttctttcaatttttagcttcttttgtttttttttttgaaaggttattgacttgtttatcttggttgaggggtttcagCATATTGAGGTAAGCAAGCTTGTGAAAGGAAGACCTCTTGATAATCTGGAGTTCATGCAATGGATGAAGAGATACTGTGACTCGGTTAATGGAGGCCTTTMapped 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|26558995|gb|CA831230.1|CA831230EST: AGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAG CATATAGAGGTGAACAAGCTAATCAAAGGAAGACCCCTTGACAATCTGGAG
genomic: AGAACTACAAGGTCCTGCAGGATGTGTTCAACAAGCTCAAGATCACTAAGgtgaatcacg ... tttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
taatatgatcttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaatcacggctttggtttctcgcccttctcttgtgccgcccgcatgggattttttttattttattttctgaaatcgattgaactgccccatcgtgttttgttgctaatatgatcttatttttgttgttttctctgttaatttggcgcagCATATAGAGGTGAACAAGCTTATCAAAGGAAGGCCCCTTGACAATCTGGAGTTCATGCAGTGGATGAAACGATATTGTGATTCTGTCAATGGTGGCTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG