Sequence
atgc intronic sequence ATGC exonic sequence...tagagacgttcttgcgttgttctatgcaattttcgcggtgtgcaaggaaagcaagaagttgatatagccaaaggtttgaatatttttctctctctctcagGGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCCAAGAAGATGGTGGAGGCGGGCGCCGTGGAGAACGTCGAGGCCATATTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G833406_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g51060.1 (Oryza sativa), 3'ss of exon 2
tagaga-cgttcttgcgttgttctatgcaatt-ttcgcggtgtgcaaggaaagcaagaagtt--gatatagccaaaggtttgaatatttttctctctctctcagGGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCCAAGAAGATGGTGGAGGCGGGCGCCGTGGAGAACGTCGAGGCCATATTCG
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tagaaaacgaacggagggagtactaagtactaactcgcaatattgttgcttgactgcatcccccaatacagcctaagc----aaagtctggtcttcttttgcagGGTACGGTGGTCCTCCTCTTCCAGCCGGGGGAGGAGGTGGGCACCGGGGCCAGGAGGATGGTGGAAGCCGGCGCCGTGGACAACGTGGAGGCCATCTTCGMapped 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|110525445|gb|EE029629.1|EE029629EST: TGCTGCTCGGCGCCGCCAGGATCCTCCATGAGCGCCGCCACGACCTGCAG GGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCC
genomic: TGCTGCTCGGCGCCGCCAGGATCCTCCATGAGCGCCGCCACGACCTGCAGgttggtcgca ... tctctctcagGGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaagcaagaagttgatatagccaaaggtttgaatatttttctctctctctcagGGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCCAAGAAGATGGTGGAGGCGGGCGCCGTGGAGAACGTCGAGGCCATATTCG
agttgat putative branch site (score: 5)
tatttttctctctctc putative PPT
tttgaatatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagagacgttcttgcgttgttctatgcaattttcgcggtgtgcaaggaaagcaagaagttgatatagccaaaggtttgaatatttttctctctctctcagGGCACAGTAGTCCTCCTTTTCCAGCCGGGAGAGGAGGTCGGCATTGGCGCCAAGAAGATGGTGGAGGCGGGCGCCGTGGAGAACGTCGAGGCCATATTCG
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