Sequence
atgc intronic sequence ATGC exonic sequencegtaaagaacaaatgctacacttttcactccatgacctcagttgtctattgctgggttggtatctgatatttgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G868168_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g46740.1 (Oryza sativa), 3'ss of exon 9
gta--aagaacaaatgctacacttttcactccatgacctcagttgtctattgctgggttggta-tctgatatttgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
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gtaatagcaggcattgttttgctggtggcttccagctttctgttgtccattgctaagctgagactcttgtactcaactttcagGTTGTTATTTCTCCATGAGGGGAAGGTAGTGTGGGAAGGAATGACACAAGAATTTACTACATCAACAAATCCTATTGTAAAACAG
upper sequence: GRMZM5G868168_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G38730.1 (Glycine max), 3'ss of exon 8
--------------gtaaagaacaaatgctacacttttcactccatgacctcagttgtct----attgctgggttggtatctg-atatttgctt------ttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
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gtaagaatattttcataatgattgcatgtcttcctgtcccctgaagcctcttaatttgcccagaattcatgtgtcctgatatgcaaagttacttcataaatacagATTGTTGTTTCTACACAAAGGAAAGATTGTTTGGGAAGGAATGACTCATGAATTTACAACTTCAACTAATCCAATTGTCCAGCAG
upper sequence: GRMZM5G868168_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA18G47600.1 (Glycine max), 3'ss of exon 8
---------------gtaaagaacaaatgctacacttttcactccatgacctcagttgtct----attgctgggttggtatctg-atatttgctt------ttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
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ggtaagaatattttcataatgattgcatgtcttcctgtcccctgaagcctcttaatttgcccagaattcatgtgtcctgatatgcaaagttacttcataaatacaGATTGTTGTTTCTACACAAGGGAAAGATTGTTTGGGAAGGAATGACTCATGAATTTACAACTTCAACTAATCCAATTGTCCAGCA-
upper sequence: GRMZM5G868168_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G65410.1 (Arabidopsis thaliana), 3'ss of exon 8
-----gtaaagaacaaatgctacacttttcactccatgacctcagttgtctattgctgggttggtatctgatatttgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
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gttccgcttctagtccatattacaagatacgtttttgcagcttt-tgcttcatcccttgagtaatatttgtttctt-ctattcagGTTATTGTTTCTGTATGAAGGAAAGATCGTTTGGCAAGGAATGACACATGAATTCACAACCTCAACTAATCCAATAGTTCAACAGMapped 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|31356046|gb|CD440403.1|CD440403EST: TATGTTGTTGTGACCCATCAGCATAGCACAATAAGAAGAGCTGTTGATAG GTTGCTATTTCTTCACGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGA
genomic: TATGTTGTTGTGACCCATCAGCATAGCACAATAAGAAGAGCTGTTGATAGgtaaagaaca ... tgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actccatgacctcagttgtctattgctgggttggtatctgatatttgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
atctgat putative branch site (score: 4)
tttgcttttc CT-rich tract
tgatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagaacaaatgctacacttttcactccatgacctcagttgtctattgctgggttggtatctgatatttgcttttcagGTTGCTATTTCTTCATGAGGGGAAGGTTGTTTGGGAAGGAATGACACATGAGTTCACAACATCAGCTAATCCAATTGTTCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT