Sequence
atgc intronic sequence ATGC exonic sequence...gcttgcttaatgttttccttttcaagcaaccttatagtttagctctctgtaacctatccagaacttgtactaacattgacttctccatttctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g41470.2 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------------------gcttgcttaatgttttccttttcaagcaacc--ttatagtttagctctctgtaacctatccagaacttgtactaacattgacttctccatttctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG----------------------------
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gtatataaatatgatactttatatttatctctcctttatcctctttatatccaatttcacccaaaagtactgaagccatgttaggttcatgtattaatcatttataatacagcta-ctccagcctgtccagaacatatgctaacagcgacattcacaaatcatttttcagCTTGAAAAGTTAAGTGATATACAAAGCCAACCAGAGTCACAGCTCAAGTTCATCATAGAGGCTTGGTTACAGGTTAGTTTTCATTGCCAAGTTTAGTTCT
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------------------gcttgcttaatgttttccttttcaagcaacc--ttatagtttagctctctgtaacctatccagaacttgtactaacattgacttctccatttctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
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gtatataaatatgatactttatatttatctctcctttatcctctttatatccaatttcacccaaaagtactgaagccatgttaggttcatgtattaatcatttataatacagcta-ctccagcctgtccagaacatatgctaacagcgacattcacaaatcatttttcagCTTGAAAAGTTAAGTGATATACAAAGCCAACCAGAGTCACAGCTCAAGTTCATCATAGAGGCTTGGTTACAG
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 11
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 11
gcttgcttaatgttttcctttt--caagcaaccttatagtttagc--tctctgtaacctatc-cagaacttgtactaacattgacttctccatttctctcttc--agCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
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-------tgatttttctattttggcatgagacctcaactttcgatgatttttcttgcttattacagtgttgggtttcactaaagcttttgttctatggacttcgcagATTGAGAAGCTCAGTGACATACAGTGTCAGCCTGAATCACAACTGAAGTTCATTATAGAAGCATGGTTACAG
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 11
lower sequence: PP1S114_2V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------------------------------------------------------gcttgcttaatgttttccttttcaagcaaccttatagtttagctctctgtaacctatccagaacttgtactaacattgacttct--ccatttc--tctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
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gtaagtggtgcagaatctgcacattttcccatctgaattaggttttcctcagttcgccatgggattgcacctattgtttaggatcttaactctctctcaatttaaagacgtgatctgcgtttgtgttttcttg-acttttgaaatct--cctttgtttttcagTCTAGGGCGAAGGCGCTTGCGGACCTTCAACAAATGCAGCCTGTGCAGATTGAAAAGTTAAGTGACAAACAATGTCAACCTGTGTCGCAGCTGAAGTTTG--------------------Mapped 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|87155958|gb|DY400747.1|DY400747EST: TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAATGACAAG CTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTC
genomic: TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAATGACAAGgtatatgatg ... ctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtaacctatccagaacttgtactaacattgacttctccatttctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
ttgacttctccatttc CT-rich tract
taacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttgcttaatgttttccttttcaagcaaccttatagtttagctctctgtaacctatccagaacttgtactaacattgacttctccatttctctcttcagCTTGAAAGGTTAAGTGACATACAAAGTCAACCTGAGTCACAGCTGAAGTTCATTGTAGAGGCATGGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG