Sequence
atgc intronic sequence ATGC exonic sequence...gtattggccacaccagttccaaaaggtggatttgggtcatccgtactcttctccaatgtaccaaatgccgtactaatttgttgttgtcttctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCCAGAATGTTCAGCGAGAACAAGCGTGAGTACAACCGCAAAGTTCGTGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G007260_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g57790.1 (Oryza sativa), 3'ss of exon 4
gtattggcca-caccagttccaaaaggtggatttgg-gtcatccgtactcttctccaatgtaccaaat---gccgtactaatttgttgttgtcttctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCCAGAATGTTCAGCGAGAACAAGCGTGAGTACAACCGCAAAGTTCGTGAGG
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-----gacaaataatggcttgggggaccatagttgatgtcttcctgcctgtaatcctcagttccacattgagcttagctgtttctgttttgccttttatctgcagTCCCTGCTCTGTGATCCAAACCCAAACTCCCCTGCAAACTCCGAAGCAGCCAGACTGTTCAGCGAGAACAAGCGCGAGTACAACCGCAAAGTCCGCGAGA
upper sequence: GRMZM2G007260_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S91_87V6.1 (Physcomitrella patens), 3'ss of exon 4
-gtattggccacaccagttccaaaaggtggatttgggtcatccgtac-tcttctccaatgtaccaaatgccgtactaatttgttgttgtcttctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCCAGAATGTTCAGCGAGAACAAGCGTGAGTACAACCGCAAAGTTCGTGAGG
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agcttgagattggtcggcgtcttctttggcatttgcggc-tgaatacgtcgacgacaacgatgcgtagagcgagattatctaatac-acggctttgatgcagTCTTTGCTGTGCGACCCAAACCCGAATTCACCAGCGAACTCGGAGGCTGCCCGCATGTACAGCGAGAATCGGCGTGAGTACAACCGGAGGGTACGCGAGAMapped 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|149074449|gb|EE162844.2|EE162844EST: GTGGAAGAAAGAAATGGTTTCCCTCGTTTACCTGATGTCACTAGAGAAAG TCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCC
genomic: GTGGAAGAAAGAAATGGTTTCCCTCGTTTACCTGATGTCACTAGAGAAAGgttggtcaca ... ctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttctccaatgtaccaaatgccgtactaatttgttgttgtcttctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCCAGAATGTTCAGCGAGAACAAGCGTGAGTACAACCGCAAAGTTCGTGAGG
tactaat putative branch site (score: 1)
ttgttgtcttctcttt putative PPT
tactaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattggccacaccagttccaaaaggtggatttgggtcatccgtactcttctccaatgtaccaaatgccgtactaatttgttgttgtcttctctttgcagTCCCTGCTGTGTGACCCAAACCCAAATTCTCCTGCCAACTCTGAAGCAGCCAGAATGTTCAGCGAGAACAAGCGTGAGTACAACCGCAAAGTTCGTGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG