Sequence
atgc intronic sequence ATGC exonic sequence...atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccatttgttgccttagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 4
atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgt-tatatgtgccatttgttgccttagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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ttcactaagaatgcttgctagatgcaaggtt-tgtcggattcgacaaatctatctttcaagtgttgaacaaaatataaggttttcactttcctatatgcagGATAAGAAGTTGTTTAACAAAACTTTATGCAAAAGACATAACTCCAGATGAGAAGCAGGAACTCGATGAAGCACTTAAGAGAGAG
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G33820.1 (Glycine max), 3'ss of exon 2
atgaaaagaaaagtaat-atatttctcgagtcatgttgaaccatatgttatat-gtgccatttgttgcctt-agattcttcacatttgcatttgaatgtgc-----agGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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--------atctgtaatgacaggacatggtatatagtatactatttctagcattgtggcaatttctgcattgaggctaattatttctgttggtgatcattctcttcagGATAAGGAATTGTTTGACACAATTATATGCTAAGGACATAACACCAGATGATAAGCAGGAACTTGATGAGGCTTTACAAAGAGAG
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 3
atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccatttgttgccttagattc--ttcacatttg-catttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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gtttgtatcatgttttttcccccctcttttc-tgttgctttatgaat-agatttacagagaagtgaaggaaactaagttctcatgtggtcctcttccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAACTTGACGAGGCTCTACAGAGGGAG
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 3
--atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccat--ttgttgcct-----------tagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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gtttgttacaaaatatagtatttttcagcttcagtattcacttttgtattttcttttttaaagctgttgcatagttaacaaaattgagccttatggttttcatctgcat-tgcagGATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATCACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAG
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 2
--atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgcc--atttgttgcct---tagattcttcaca----------------tttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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gtttgttacaaaatatagtatttttcagcttcagtattcacttttgtattttctttttttaagtttttgcatagtcacatagttaacaaaattgagctttatggttttcatctgcat-tgcagGATAAGGAATTGTTTATCTCAATTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAGCTTGATGAGGCTCTACAAAGGGAG
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT2G42600.1 (Arabidopsis thaliana), 3'ss of exon 3
atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccatttgttgccttagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
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--------gtttgtttaacttttttagtgtcttgacattttggattccttgtgtgt-gtgacttgactgatgtatttttttgtctcaaatg--ttttcagGATTCGTGATTGTTTGACGCAGTTATATGCAAAGGACATTACTCCTGATGACAAACAAGAACTCGATGAAGCTCTGCAACGAGAGMapped 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|56691567|gb|CX129470.1|CX129470EST: GCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAG GATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGA
genomic: GCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcg ... gaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatatgtgccatttgttgccttagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
atttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaaaagaaaagtaatatatttctcgagtcatgttgaaccatatgttatatgtgccatttgttgccttagattcttcacatttgcatttgaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA