Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g35870.1 (Oryza sativa), 3'ss of exon 8
gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttga-tagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaacgttaactcccctatc-ttgaaatttaaatttgacttgtagcttgaagtaaatgtctgcttgaactggctcctttcatacagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGAC
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G43340.2 (Glycine max), 3'ss of exon 8
----gtaatgtttacttctacac-tgt---tacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaagtccactagacttctatgtgtgtgcataaaatattagtaaagaggccactcctcttctatgct--cctcattgtgactttgtattttagGGATGTCAAATACCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCAAAGGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G02420.1 (Glycine max), 3'ss of exon 8
----------gtaatgtttacttctacactgttacaacatgaattcaagcgctagatt-tgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaattccatgggacttgtattttagaatgaggccattccctatcagttctcttcattgtgactttgtagttatctgatcttgtttcttattgtagGGATGTCAAGTATCATGAACCTGAGTTTTGGAAATTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA06G11330.1 (Glycine max), 3'ss of exon 8
----------------gtaatgtttacttctacactgtta-caacatga--attcaagcgctagatttg--atagaggcct---------gcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaagtcaactagacttctatgtgtgcgcataaaatattagcaaagaggctactcctcttctatgcttcccattgtggctttgtatttatgtttgactttgttttgtat-tttagGGATGTCAAATACCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCAAAGGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G22015.1 (Arabidopsis thaliana), 3'ss of exon 8
---gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattc-------atatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
|||| | | | | ||||| | ||| || | | ||| || | | || | | | | ||| | ||||| | ||||||| |||||| |||| ||||||||||| || ||||| || || || ||||| |||||||| || ||||| |||||||| || || |||
gtaataatcctaatgtgtgtgttgttatatcatttttttgaatattctattctatttatttgggtttctaaccagttttttctcaaaatgtgtagGACGGCCAAGTACCGTGAACCCGAGTTTTGGAAATTTGGAGAAGAAGGTAACAAATATTTCCGACATGCTACGGGACAGATTTATGCCATATCAAAGGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G77810.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgtttacttctacactgttacaacatgaa--ttcaagcgctagatttgatagaggcctgct---tgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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---gtaattccatttgcttgagtcaagcttaaagtttctctggttttactggttagattattgttgagttagTTTATTGAACTGTTTCAGGACAGTAAAGTACCATGAACCTGAGTATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATC------------------
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G77810.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgtttacttctacactgttacaacatgaa--ttcaagcgctagatttgatagaggcctgct---tgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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---gtaattccatttgcttgagtcaagcttaaagtttctctggttttactggttagattattgttgagttagtttattgaactgtttcagGACAGTAAAGTACCATGAACCTGAGTATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv18s0001g04150.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------------gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgct-ctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaatcctctcaggcttgtagattgattagaatctctcttcaactttctttttgcctttctttgtcattctttctttctttcctttttttccccttacacatttttttcctgctcgtcttctagGAATGTAAAGTACCATGAACCAGAATACTGGAAGTTTGGAGAGGAGGGGAACAAGTATTTCCGGCATGCAACTGGGCAGATTTATGCAATCTCAAAAGAT
upper sequence: GRMZM2G070708_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv07s0031g03090.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
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gtaagtcctactagctcttaatgaagagaacagggatccttgatttggttcctgggttgactatggtgaatctcaattttcaattctt-cttgctttctttctttcttgtc-tgcagGACTGTGAAGTATCATGAACCTGAATACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGATMapped 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|211239910|gb|FL238805.1|FL238805EST: CCAAGAACTTATATTGGCTGCATGAAGTCAGGCCCAGTTCTTGCTGACAA GAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAA
genomic: CCAAGAACTTATATTGGCTGCATGAAGTCAGGCCCAGTTCTTGCTGACAAgtaatgttta ... attcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAA
EST:
gi|211169871|gb|FL077600.1|FL077600EST: CCAAGAACTTATATTGGCTGCATGAAGTCAGGCCCAGTTCTTGCTGACAA GAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAA
genomic: CCAAGAACTTATATTGGCTGCATGAAGTCAGGCCCAGTTCTTGCTGACAAgtaatgttta ... attcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
atttgat putative branch site (score: 5)
ctctattc putative PPT
tattcatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtttacttctacactgttacaacatgaattcaagcgctagatttgatagaggcctgcttgaacctgctctattcatatagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT