Sequence
atgc intronic sequence ATGC exonic sequence...atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaattacggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G094928_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.2 (Oryza sativa), 3'ss of exon 1
atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaatta--cggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT
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atgtgccatatatttttggacttttga--tggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagCAGCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG--
upper sequence: GRMZM2G094928_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51270.1 (Oryza sativa), 3'ss of exon 1
atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaatta--cggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT
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-tgccatatatt--tttggacttttga--tggttttacctggccttctgatcaagttctttttttctgagttctttttaattgattctgattcttccttcagcagCACAAAGATGGACGCAAACAGACGCCAAAGTGGAATCCAGCAATTGTTGGCTGCAGAGCAAGAGGCTCAGCAAATAGTAAATGCTGCTAGGGCTG--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|71446860|gb|DR827910.1|DR827910EST: CACCGTCCTCCACTCCGGCTGCCGAATCGACCCGCCCCGATCCAGATCAG GAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCT
genomic: CACCGTCCTCCACTCCGGCTGCCGAATCGACCCGCCCCGATCCAGATCAGgtaaccccgc ... ttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCT
EST:
gi|211500313|gb|FK974347.1|FK974347EST: CACCGTCCTCCACTCCGGCTGCCGAATCGACCCGCCCCGATCCAGATCAG GAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCT
genomic: CACCGTCCTCCACTCCGGCTGCCGAATCGACCCGCCCCGATCCAGATCAGgtaaccccgc ... ttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaacatttgaggtctatctctgattccgaattacggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT
ctctgat putative branch site (score: 4)
ccttttgttttgccc putative PPT
ttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtcttgtagcgatctaggtttatgtgctccctttgtttgatctgaaacatttgaggtctatctctgattccgaattacggaccttttgttttgcccagGAGCTGAGGGATGGACGCGAACAGGCGCCAGAGTGGGATCCAGCAGTTGCTGGCTGCGGAGCAGGAGGCTCAGCAAATTGTGAATGCCGCTAGAGCTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT