Sequence
atgc intronic sequence ATGC exonic sequenceGTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os04g57220.1 (Oryza sativa), 5'ss of exon 4
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
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-----TTTCCGCACCAAGGTTTTCCACCCGAACATTAATAGCAATGGCAGCATTTGCCTCGACATCCTCAAGGAACAGTGGAGTCCTGCACTTACCATATCAAAGgtaa-ttatcagcatgacctgatttcaacattttggcccttctgtga--cacctga------tgaattgtgttatcattaattctaacag---
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G18310.1 (Glycine max), 5'ss of exon 4
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaa-----ttgtctacattgtttatattg--tgagttct---ggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
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-----CTTCCGAACCAAGGTATTTCACCCTAACATAAACAGCAATGGAAGTATCTGTCTGGACATTCTGAAAGAGCAGTGGAGTCCTGCCCTTACAGTTTCCAAGgtattaggctttatacgtgtcattttccttgcctaacttcaccaatttgttttcttgatgatttaatgcatcagtagatccttgaactttttaggaattt---
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA16G17740.1 (Glycine max), 5'ss of exon 3
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
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-----ATTTCGTACAAAGGTTTTCCACCCTAACATCAACAGTAATGGAAGTATCTGCCTTGACATCCTCAAAGAGCAATGGAGCGCTGTTCTAACAATATCTAAGgtaa-----cgaaataatttatttaatttaattttcttgtaatg-gat--acttaaaatgtt-aaaattgtgtag------------------
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA16G17760.1 (Glycine max), 5'ss of exon 3
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
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-----ATTCCGCACAAAGGTTTTCCATCCTAACATCAACAGTAATGGAAGTATCTGCCTTGACATCCTCAAAGAGCAATGGAGCGCTGCTCTAACAATATCCAAGgtaaaa-----gaataatttatttaatttaattttcttgtaatg-gat--acttaaaatgtt-aaaattgtgtag------------------
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA16G17800.1 (Glycine max), 5'ss of exon 3
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
|||||||| |||||||||||||| ||||||||||| || || || || ||||||||||| || || || || |||||| ||||| | || || || ||||||| | | || || |||| || | || || | | | ||| || | || | | ||||| |
-----ATTCCGCACAAAGGTTTTCCACCCTAACATCAACAGTAATGGAAGTATCTGCCTTGACATCCTAAAAGAGCAATGGAGTGCTGCTCTGACAATATCCAAGgtaa-tagaataatttatttaattt---aattttg-ttataatg-gat--acttaaaatgtt-aaaattttgtag------------------
upper sequence: GRMZM2G102471_T05 (Zea mays), 5'ss of exon 4
lower sequence: AT5G56150.2 (Arabidopsis thaliana), 5'ss of exon 4
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggt----aaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac------
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-----CTTCCGGACCAAGGTTTATCACCCAAACATCAACAGTAATGGAAGTATCTGTCTTGACATTCTGAAAGAGCAGTGGAGCCCTGCACTTACCGTATCCAAGgtgatcaaattgtttcacttccttactttttagtatagcattagtctattttccaccacaccttcttgtgaccat---gtcttagttaaatggtcatgtcttaMapped 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|31628504|gb|CD526640.1|CD526640EST: AGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGCCCTGCTTTAACTAT CTCACTGCTCACGGACCCAAACCCTGATGATCCTCTTGTCCCTGAGATTGC
genomic: AGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggta ... tgtcaatctgCTCACTGCTCACGGACCCAAACCCTGATGATCCTCTTGTCCCTGAGATTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGTCTTTCCGCACCAAGGTTTTCCACCCGAACATCAACAGCAACGGCAGCATTTGCCTTGACATTCTTAAGGAACAGTGGAGTCCTGCTTTAACTATctcaaaggtaaattgtctacattgtttatattgtgagttctggctgcactctgatccacctgaatcctccgaggttttgaggccttacttttggctccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG