Sequence
atgc intronic sequence ATGC exonic sequence...ccattttgtaggaaagaaaaaaaaattggtcctcagtcgtgtcgtgcctcatgcttacttaatgtgccttacacagttacactgatctacaacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGCGCTGCCGTTGCGTATGCTGGTAATAACACAGCAAGCTAACTCTTCCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149894_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g12850.1 (Oryza sativa), 3'ss of exon 2
--ccattttgtaggaaagaaaaaaaaattggtcctcagtcgtgtcgtgcctcatgcttacttaatgtgccttacacag-ttacactgatctacaacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGCGCTGCCGTTGCGTATGCTGGTAATAACACAGCAAGCTAACTCTTCCCCT
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acatattgttcagcttacagtgaactgtcatacctgagctataacataaaaggtgcatat---atacacactgtttagcttacagtaagctacaaccttgcagGTGGTTTTTACTCTGTATTTTCTAGCAGCTTTGGGGAGGGTGGTGTCAGGCGCCGCAGTTGCTTACGCCG------------------------------Mapped 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|78179621|gb|DV549994.1|DV549994EST: CTGTATTAAGGGTGGCTGCAACTGGACATGACAAGAAGCTGTTTTTCAAG GTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGC
genomic: CTGTATTAAGGGTGGCTGCAACTGGACATGACAAGAAGCTGTTTTTCAAGgtaggctctc ... aacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGC
EST:
gi|6973446|gb|AW438140.1|AW438140EST: CTGTATTAAGGGTGGCTGCAACTGGACATGACAAGAAGCTGTTTTTCAAG GTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGC
genomic: CTGTATTAAGGGTGGCTGCAACTGGACATGACAAGAAGCTGTTTTTCAAGgtaggctctc ... aacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctcatgcttacttaatgtgccttacacagttacactgatctacaacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGCGCTGCCGTTGCGTATGCTGGTAATAACACAGCAAGCTAACTCTTCCCCT
ttacttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccattttgtaggaaagaaaaaaaaattggtcctcagtcgtgtcgtgcctcatgcttacttaatgtgccttacacagttacactgatctacaacgttgcagGTGGTTTCTACATTGTATTTTCTAGCAGCTTTGGGAAGGGTGGTGTCAGGCGCTGCCGTTGCGTATGCTGGTAATAACACAGCAAGCTAACTCTTCCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT