Sequence
atgc intronic sequence ATGC exonic sequence...gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g40720.1 (Oryza sativa), 3'ss of exon 4
-----------gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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atttctctatagtaatctaaaaatttctagattgacaattcccatca--gtttcagaa-ttaagtcctaacatg-------taacactt-tctttttttgcatggcaccagAGGAAATGGACTGGGACAAGAATGGAATGGTGACCTTCAAAGAATTTCTGTTTGCATTCACTCGCTGGGTTGGGATTGACGAAAATGAGGACGACAATGA
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G33830.1 (Glycine max), 3'ss of exon 5
-----gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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tctatccagtagcaactctaaatcaactttg-tctctgttttttcttcctaactagtattttatttactaagtatt----ttgttttctctgtaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTTAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGACGATGAGGAAAA
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
--gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcact--agAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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atacagtagcaactctaaatcaaccttc-tctttgttttttcttcctagctagtattttatttactaa---taagtattttgttttctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G26470.1 (Arabidopsis thaliana), 3'ss of exon 4
gaagtataaaaacttgcacactcataattcctgttactgttt-tgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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-------------gtttattcttaaactccctccctcttcttctcaagctttcttct--tcactgaaccaagaatattgattttgattcctgtgtctgcagAGGAAATGGACTGGGACAAGAACGGAATGGTGAACTTCAAAGAGTTTCTCTTCGCATTTACGCAGTGGGTTGGGATAGATGAGAATGAAGAAGAAGAAGA
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
--gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaattt-ttttccataataatctatttcac-ttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S429_31V6.1 (Physcomitrella patens), 3'ss of exon 4
--gaagtataaaaacttgca-cactcat--aattcc---tgttactgttttgaaacttgcgtcccatcttcccagtc-----ctgacg---tttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
| |||| || || ||| |||| | ||| | || ||||| | || |||| | ||| |||||| | ||| | | || ||||||||||||||||||||| |||| ||| | |||||||||||||| |||| || ||||| |||||||||| |||| | | || || ||| |
gtccgtttctcgtactttcatcatccattgaattgcgtacaccactctattcaaactcgtgtgttctcttgcaagtgtgatactgacgaaatgtacgtgagtcgcaatctgttcagAGGAAATGGACTGGGACAAAGACGGTATGATCACATTCAAGGAGTTTTTGTTCGCTTTCACCGACTGGGTAGGACTTGAGAACGACGAAGAAGAAACAGG
upper sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ07984 (Selaginella moellendorffii), 3'ss of exon 3
gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
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--------------------------------gtaactctcaagaaa---aaaccagaaacttccgtaactttcttcatgcttctcgtactcgaca---gAGGAAATGGATTGGGACAAGAATGGGATGATCACGTTTAAGGAGTTTCTGTTTGCTTTTACTGATTGGGTTGGGATCGAAGAAGAAGAAGATGCAGACGAMapped 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|113675155|gb|DW829924.1|DW829924EST: ACCACGACAGGAGAGCGCTCTTCTGGGCCTATAGCCAATGAAAAGATTTG AGGAAATGGACTGGGAC
genomic: ACCACGACAGGAGAGCGCTCTTCTGGGCCTATAGCCA-TGAAAAGATTTGgtcagttttc ... atggcactagAGGAAATGGACTGGGAC
EST:
gi|50324727|gb|CO519853.1|CO519853EST: GACCACGACAGGAGAGCGCTCTTCTGGGCCTATAGCCATGAAAAGATTTG AGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGT
genomic: GACCACGACAGGAGAGCGCTCTTCTGGGCCTATAGCCATGAAAAGATTTGgtcagttttc ... atggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
tcctgac putative branch site (score: 2)
tttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG