Sequence
atgc intronic sequence ATGC exonic sequenceAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAATTTGAAGAATCACGTGGATCTTTGTAAGATGCTTGACATAGTAGCTTTGGAGAAAGgtatatggtaaaataattctctctcatttgaattatttttattctaaaatggttgcttggttttggttttttcaaagttcaaagcataatactttccttg...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g37837.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G014367_T02 (Zea mays), 5'ss of exon 3
AATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAATTTGAAGAATCACGTGGATCTTTGTAAGATGCTTGACATAGTAGCTTTGGAGAAAGgtatatggtaaaataattctctctcatttgaattatttttattctaaaatggttgcttggttttggttt-tttcaaagttcaaagcataatactttccttg---
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AATAAAATTGTACGGGCATTTGGAGAGAAGAGAGTAGAGGATAATTTGAAGAACCACGTGGACCTTTGCAGGATGCTTGATATTGTCGCATTGGAAAAGGgtatatgctctca-acttttctctatttacatgtgcttttttaccgccagtattgcttgtgttaagcatgtttcaaagtt---attacaaacctgactgtggag
upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G172101_T01 (Zea mays), 5'ss of exon 4
AATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAATTTGAAGAATCACGTGGATCTTTGTAAGATGCTTGACATAGTAGCTTTGGAGAAAGgtatatggtaaaataattctctctcatttgaattatttttattctaaaatggttgcttggttttggttttttcaaagttcaaagcataatactttccttg--
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AATAAAATTGTACGGACATTTGGAGAGAAGAGAGTAGAGGAAAATTTGAAGAATCACGTGGACCTTTGCAGGATGCTTGACATTGTCGCATTGGAGAAGGgtatatgctctca-acttttctctatttacatgtgcttttttaccgccgtgattgcttgtttaagcatgcttcaaagtt-attacaaaccaattgcctattt
upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G461189_T01 (Zea mays), 5'ss of exon 3
AATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAATTTGAAGAATCACGTGGATCTTTGTAAGATGCTTGACATAGTAGCTTTGGAGAAAGgtatatggtaaaataattctctctcatttgaattatttttattctaaaatggttgcttggttttggttttttcaaagttcaaagcataatactttccttg
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AATAAAATTGTACGGGCATTTGGAGAGAAGAGAGTAGAGGATAATTTGAAGAACCATGTGGACCTTTGCAGGATGCTTGATATTGTCGCATTGGAAAAGGgtatatgctctca-acttttctctatttacatgtgcttttttaccaccag--------------------------------------------------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|3107670|gb|D43410.1|D43410EST: GCTTGACATAGTAGCTTTGGAGAAAG GTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCC
genomic: GCTTGACATAGTAGCTTTGGAGAAAGgtatatggta ... atttttgcagGTGCTGATGTAGCAGGTGGAAGGGGTTACTATTTAAAGGATGAAGGTGTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAATTTGAAGAATCACGTGGATCTTTGTAAGATGCTTGACATAGTAGCTTTGGAGAAAGgtatatggtaaaataattctctctcatttgaattatttttattctaaaatggttgcttggttttggttttttcaaagttcaaagcataatactttccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA