Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgctcaaactgattagttcatttttacataatcagcagaccatatattttattctttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 6
gtgagtgctcaaactgattagttcatttttacataatcagcagaccatata----ttttattctttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
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gtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttgcagTGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGGATCCTCAAGAACAGTGCGGAGTCTGAAAATATGAACTG
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------gtgagtgctcaaactgattagtt----cattttt----acataatcagca-gaccatat-attttattctttttttca----------gTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
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gtaagttacgctatcagttagagttagaatagtttcatctttccattgtttagaatttaattgacacaactataccatgtcacttttatcgtcatgggtctgcagTGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTG
upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ15174 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtgctcaaactgattagttcatttttacataatcagcagaccatatattttattctttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
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------gtaaatgtttttttcttctttttgatgtcgcctggggtttctgacgcttgg--ttttctttagTGCTTAGAGGAAGCGCACCGACCGGTAGATTGTGAGACTGTTGCAAAGTGGATCCTCAAGAACAGCGCGGAGTCAGAAAACATGAACTGMapped 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|149009445|gb|EE041460.2|EE041460EST: GTGGCAGCTATGATGTTAATTGCA-CTGTTCATATGGGTTTTGTTGGAAT TGCCCCGAGGA
genomic: GTGGCAGCTATGATGTTAATTGCAACTGTTCATATGGGTTTTGTTGGAATgtgagtgctc ... tttttttcagTGCACCGAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattagttcatttttacataatcagcagaccatatattttattctttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
aactgat putative branch site (score: 3)
tattttattctttttt putative PPT
atatattttattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgctcaaactgattagttcatttttacataatcagcagaccatatattttattctttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGACTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCAGAGTCAGAGAATATGAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC