Sequence
atgc intronic sequence ATGC exonic sequenceTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacctacactcatgctataccactaggtgttcattctgtcattgttctgttttaatatatgcacttgctgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 5'ss of exon 6
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacc-tacactcatgctataccactaggtgttcattctg-tcattgttctgttttaatatatgcacttgctgcag
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TCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAGgtatgctacaatttgcttgtactctgtttttcgttatcctttatgctcatgtttctttggcatttgatgcatttgatacag
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G14030.1 (Glycine max), 5'ss of exon 8
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgt--------------tccctacctacactcatgctataccactaggtgttcattctgtcat---tgttctgtt----ttaatatatgcacttgctgcag------------------------
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TCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAGgtagtttagcatttgaccttttcttataatcttgctggaggaaatgctctgtattttttcacctctgttttgctacgactaagactcataattcttaaaatttccattcttgttccctctgcag
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G35640.1 (Glycine max), 5'ss of exon 7
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacctacactcatgctataccactaggtgttcattctgtcattgttctgttttaatatatgcacttgctgcag
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TCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAGgtagttttccctccctc----tatcttctttcattttgatttt----tggttaatttttgttgttagggattgag----
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA04G40760.1 (Glycine max), 5'ss of exon 8
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttcccta----cctacactcatgctata---ccactag-gtgttcattctgtcattgttc-----tgttttaatatatgcacttgctgcag---------------------------------
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TCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAGgtagtttaggatttgacctttttcttataatcttgctggagaaaatgctctgtaatttttcatatctgttttgctacaattatgactcataattcttaaaatttgcattcttgttacctctgcag
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT4G10610.1 (Arabidopsis thaliana), 5'ss of exon 6
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgt--tccctacctacactcatgctataccactaggtgttcattctg----tcattgtt-ctgttttaatata--tgcacttgctg-cag
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ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGCACTAACATTGACAAGAAGgtgactctcactcgaataaattggtttcctttgccaaactattctgaaacttaatgttgctaactttgcttagtttcacttttcaacag
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 5'ss of exon 7
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgt---tccctacctac-----actcatgctataccactaggtgttcattctgtcat-tgt-tctgttttaatatatgcacttgctgcag
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TCTGAAGATGAACGTGAAATGTGCGCCAGGACTATTTACTGTACAAATATTGATAAGAAGgtatttctgaatctacttgtcacttctagtgtggttgagagcactaattggaaaatctgtatctgatttact-tgtttatttgatgcag
upper sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 5'ss of exon 6
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacc-tacactcatgctataccactaggtgttcattctgtcattgttctgttttaatatatgcacttgctgcag---------------------
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TCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAGgtgaagtggagtgaaatagaatttcgttgttctatgctgacgatgagatccatccgttttactgcctgc-ttttttgcgataagttgctcttctctttgtgMapped 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|9743159|gb|BE519307.1|BE519307EST: AACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG GTCACTCAGGCAGATCTGAAATTGTTCTTTGAGTCTATATGTGGAGAG
genomic: AACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacc ... cttgctgcagGTCACTCAGGCAGATCTGAAATTGTTCTTTGAGTCTATATGTGGAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGgttccctacctacactcatgctataccactaggtgttcattctgtcattgttctgttttaatatatgcacttgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG