Sequence
atgc intronic sequence ATGC exonic sequenceAGCACTCGCACGAGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g40620.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G086052_T03 (Zea mays), 5'ss of exon 2
AGCACTCGCACGAGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttag
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AGCACTCGCACGAGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagcttctg----------tttctatgttaatcactgttgctcgc--gttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttag
upper sequence: LOC_Os01g40620.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G086052_T02 (Zea mays), 5'ss of exon 2
-------------------------AGCACTCGCACGAGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttag
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GTGTTGTTGTGTCAAAATGCGGCAGAGCACTCGCACGAGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagcttctg----------tttctatgttaatcactgttgctcgc--gttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttagMapped 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|58690997|gb|CK079684.1|CK079684EST: AGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAG TTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctg ... cggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCACTCGCACGAGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttag
- - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - AGAGCA