Sequence
atgc intronic sequence ATGC exonic sequencegtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttgga-gaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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gtgagttttcatttgttactcatactctttttcaatat--tcaacatagtttatttggatgagcatctggtggat--tggcct-gtc--ttgttcgtactattttttattatagctattcctattc---tatgtgtgtagCTTTGAGCAGCATGAGGCCCCAGGTTCAAGATCATTCTTTACTGAGATTATAGCCTCGATTTCAGACATAAAGTTTTCCAAGGATGGGAGACATATTCTC
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacc-tgttcatgtcttct--tgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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---------------------------------------tgaagcagaatttttctgaagcctgttatatgcat---gaatttatgtatttttttaatagctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCCCCAGGGTCCAGATCATTTTTCACAGAGATTATTGCTTCTATCTCAGACATAAAATTTGGGAAGGATGGAAGATACATACTA
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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-------------------------ttgcatacaagg-----aaaaccatttttctggagcctattatatatgtattcatttatgtgatttgttttgcggtaaactcacagaatattacct---------tttgtacagATTTGAGGAACAAGAAGCCCCTGGGTCCAGATCATTTTTCACAGAGATTATCGCTTCAATCTCAGACATAAAATTTGGGAAGGATGGAAGATATATACTT
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttat-caattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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---------------------------------------ttttgcatacaaagaaaagcatttttctggatcctattatatttattcatttatgtgatttcttttgcggtagactcacagaaaattat-tttctgtacagATTTGAGGAACAAGAAGCCCCTGGGTCACGATCATTTTTCACAGAGATTATTGCCTCAATCTCAGACATAAAATTTGGGAAGGATGGAAGATATATACTT
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttt-tatacc-tgttcatgtcttct--tgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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----------------------------------------gaagcagaatttttctgaagcctgttatatgtat---gaatttatgtattttttttaatacctggtagactctaataaacaatacccttggcatttgatgcagATTTGAGGAACAGGAAGCTCCAGGGTCCAGATCATTTTTCACGGAGATTATTGCTTCTATCTCGGACATAAAATTTGGGAAGGATGGTAGATACATACTT
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 8
gtgagcttttagttta-cactttttatttcctacaata------tgtt-cagtatactct-acttggagaatat-------tgggtggatactgaccttatcaattatccta--aaagtttccttgta-----------------------tttttatacctgttcatgtcttctt------gtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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gtaagttctgttctcatcatcctttatcggaaatggtagttgcatgtttcaatatatacttaagaaggggatatgaatacgtgggttcatttccaatttttctcttttcttgtcagaaatgacttggaaatgaagattaataggctaaagtttctgaccactgaccattgttgcttcatatcacagATTTGAAGAACCGGAAGCACCTGGTTCAAGATCATTTTTCACAGAGATAATTGCCTCAATTTCAGATATTAAATTCTCAAAGGATGGGAGATACATACTT
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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---------------------------------------tgcattgatcagggaaaaagaaaaaaaaaatcattttgaaggtaaacgtttttatttagtgctctttcctggatcagtcagtgatagtacttgcatgcagGTTTGAGGAACAAGAGGCACCTGGTTCAAGATCATTTTTCACAGAGATAATTGCCTCAATTTCAGACATTAAATTTTCCAAGGATGGAAGATTTATACTC
upper sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 8
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttg--tagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
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------------------------------------atctcctttactttatgttttgtctttttttagttcat-----cctgttcaattctgtggaacatggagatagattattaaaattgtggaagtatctgtaatcagATTTGAGGAGGCAGAGCCTGCAGGATCACGATCATTTTTCACAGAGATCATAGCATCGATTTCGGACATCAAGTTCGCTAGAGGAGGCCGTTATATCCTAMapped 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|91057148|gb|EB167566.1|EB167566EST: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAAT CTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
genomic: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAATgtgagctttt ... cttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
EST:
gi|67032341|gb|CO461090.1|CO461090EST: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAAT CTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
genomic: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAATgtgagctttt ... cttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
EST:
gi|31356630|gb|CD440987.1|CD440987EST: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAAT CTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
genomic: CGACTTGTTGATCTGCGCCAATCAGCCCTTTGCGACACTCATTATCAAATgtgagctttt ... cttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
tcctaaa putative branch site (score: 2)
tgtcttctt putative PPT
ttgtatttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcttttagtttacactttttatttcctacaatatgttcagtatactctacttggagaatattgggtggatactgaccttatcaattatcctaaaagtttccttgtatttttatacctgttcatgtcttcttgtagCTTTGAGCAGCATGAGGCCCCAGGCTCAAGATCATTTTTCACTGAGATTATAGCCTCAATTTCGGACATAAAGTTTTCGAAGGATGGGAGGCATCTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG