Sequence
atgc intronic sequence ATGC exonic sequenceATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagttgcaacatataaagtggctaaaactaagagttttgatgcatgatgtttattatctgatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g65330.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G046846_T01 (Zea mays), 5'ss of exon 12
ATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagttgcaacatataaagtggctaaaactaagagttttgatgcatgatgtttattatctgatgcag
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-------------------------------------------------------GGCTCACCATGGTTTCGGTTGGGTTGGAGAGTGGGCAAATACTGGgttggtatcttattttgttcatttctaataggaaagtta--tatggctagaacatcggagtaatgatcctttttgtcttacacag
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G148773_T01 (Zea mays), 5'ss of exon 11
ATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagttgcaaca--------tataaagtggctaa----aactaagagttttgatgcatgatgtttattatctgatgcag
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-------------------------------------------------------GGCTCATCATGGTTTCGGTTGGGTTGGAGAGTGGGCAAGTACCGGgtatgtatctgattttgttcatttctaacaggaaattccatatcggggttcaccatggctagaacatcggagtaatgatcctt-ttgtcttacacag
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA10G36210.1 (Glycine max), 5'ss of exon 14
ATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagttgcaacatataaagtggctaaaactaagagttttgatgcatgatgtttattatctgatgcag
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-------------------------------------------------------AGCTCATCATGGCTTTGGATGGGTTGGAGAATGGGCTAATACAGGgtgagagaacagaatactagatttacttgctctatgtttgtacgttctaccggtttttttctaatataagt-ttgtatag-----
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT5G08660.1 (Arabidopsis thaliana), 5'ss of exon 12
ATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagt-tgcaacatataaagtggctaaaactaagagttttgatgcatgatgtttattatctgatgcag
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-------------------------------------------------------AGCGCATCATGGTTTTGGCTGGGTTGGAGAGTGGGCAAATACAGGgtgagtgatgaatgaaattagacctgcaacttctacattttgtctttttattt-ctccaatgcttt-cgtttttaatct--tacag
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S126_154V6.1 (Physcomitrella patens), 5'ss of exon 11
------ATATATATGAGCTTTGTTTTGTGTGTTCCTGAAT-CTGATAATTTAAATAATACAGGGC----TCACCATGGTTTTGGTTGGGTTGGAGAGT--GGGCAAATA-CAGGgttggtatc-caacttcat-ccagttgcaacatataaa-gtggctaaaactaagagttttgatg-catgatgtttattatct-gatgcag------
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GGCTCACCATGGATTTGGATGGGTTGGTGAGTGGGCAAATACTGGgtaagtatgtcttcccagatcgtattccttcagtactatatatgttaataatttcgagcaacaatcagtgtgcgaattacatttttatgccctctacacttaatgcatgtggatgtttttccggcttttcttttcatgtttatgtttatgtcgttgtaataacagMapped 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|29680203|gb|CB676478.1|CB676478EST: TACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGG GTCAGAAGTGAACTGCAAACCAACAGGACAAATGGACCTGACCCGAATTGA
genomic: TACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatcc ... tctgatgcagGTCAGAAGTGAACTGCAAACCAACAGGACAAATGGACCTGACCCGAATTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATATATGAGCTTTGTTTTGTGTGTTCCTGAATCTGATAATTTAAATAATACAGGGCTCACCATGGTTTTGGTTGGGTTGGAGAGTGGGCAAATACAGGgttggtatccaacttcatccagttgcaacatataaagtggctaaaactaagagttttgatgcatgatgtttattatctgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA