Sequence
atgc intronic sequence ATGC exonic sequenceGAGGCTGGGCAGAAGGATCGCCACAGACGCGATCACCACGCCAGTAGTGAACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAGgttagaaatgattggcgatctttcgtaaatagttggggggttgcaattactcctacaaatcgatttggtagatgccctttttgcaaatgttaaaaatttcctcttctctcag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g25940.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g25940.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G113873_T02 (Zea mays), 5'ss of exon 2
GAGGCTGGGCAGAAGGATCGCCACAGACGCGATCACCACGCCAGTAGTGAACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAGgttagaaatgattggcgatctttcgtaaatagttggggggttgcaattactcctacaaatcgatttggtagatgccctttttgcaaatgttaaaaatttcctcttctctcag
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GAGGCTGGGAAGAAGGATCGCCACGGATGCGATCACCACACCGGTAGTGAACACGTCGGCCTACTGGTTCAACAACTCGCAAGAGCTAATCGACTTTAAGgtagtgaat-attcgtgcttgctcttgtctaatttgacggatgtgagttttgacgccgaaatattaagttt-tatctgttccttag--------------------------
upper sequence: LOC_Os03g25940.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G075153_T05 (Zea mays), 5'ss of exon 3
GAGGCTGGGCAGAAGGATCGCCACAGACGCGATCACCACGCCAGTAGTGAACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAGgttagaaatgattggcgatctttcgtaaatagttggggggttgcaattactcctacaaatcgatttggtagatgccctttttgcaaatgttaaaaatttcctcttctctcag
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GAGGCTGGGAAGAAGGATAGCCACGGATGCTATCACCACGCCGGTAGTGAACACGTCGGCCTACTGGTTCAACAACTCGCAAGAGCTAATCGACTTTAAGgttcgacatattc-----ccttgtccaaatgaat----attcgttcttgctcttgtata---atttgacagat--ctgacgcggaaatattaaattttatctgctc-cttagMapped 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|29671055|gb|CB667330.1|CB667330EST: ACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAG GAGGGGAGGCATGCTAGCTTCGAGTATGGGAGGTATGGTAACCCGACCACT
genomic: ACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAGgttagaaatg ... cttctctcagGAGGGGAGGCATGCTAGCTTCGAGTATGGGAGGTATGGTAACCCGACCACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGCTGGGCAGAAGGATCGCCACAGACGCGATCACCACGCCAGTAGTGAACACCTCGGCCTACTGGTTCAACAACTCGCAGGAGCTCATTGACTTCAAGgttagaaatgattggcgatctttcgtaaatagttggggggttgcaattactcctacaaatcgatttggtagatgccctttttgcaaatgttaaaaatttcctcttctctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA