Sequence
atgc intronic sequence ATGC exonic sequenceGATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctacttactgtgatgcaaatattagtagcgatcagctgctatcactggcaggaaattactacttttgttgttaccattattttgaaaaatata...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g14260.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G058870_T01 (Zea mays), 5'ss of exon 6
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctacttactgtgatgcaaatattagtagcgatcagctgctatcactggcaggaaattactacttttgttgttaccattattttgaaaaatata----
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AATGAAGACTCAAAGAGATGCATTTATCACTTCACTTGCCAAGTTTACATCACTTCACTCTGCTGCTGATATTAAGCAGAAAAATGTTGAAGCCATTAAGgtttgctctgtttattaagacataactgtta--agccatctgctcttcacttggttggaccattctcaatcttcttaatgc--ttgttgaaaagatcataacaa
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA03G02610.1 (Glycine max), 5'ss of exon 6
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctactta----ctgtgatgcaaa---tattagtagcg-atcagctgctatcactggcaggaaattactacttttgt-tgttaccattattttgaaaaatata
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GATGAAGACTCATAGAGATGCTTTTGTGACTTCATTAGCAAAGTTTACCTCACTACATTCACCAGCAGATATTAAGCAGAAAAATGTTGATGCAATTAAGgttagtataatttaacttctcttctacctggcttatgaacagcatataagctgaagtgattatcaattagcaattcttattctgtgttat-gttacttcct--------
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA01G34560.1 (Glycine max), 5'ss of exon 7
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctacttactgtgatgcaaatattagtagcgatcagctgctatcactggcaggaaattactacttttgttgttaccattattttgaaaaatata
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GATGAAGACTCATAGAGATGCTTTTGTGACTTCATTAGCAAAGTTTACCTCACTACATTCACCAGCAGATATTAAGCAGAAAAATGTCGATGCAATTAAGgttagtcaaatttaacttctcttctacctggcttatgaacatcatataagctgaagtgattatcaattatcaattagcaattcttattctgtgttatgtt
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA18G45340.1 (Glycine max), 5'ss of exon 6
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctactta------ctgtgatgcaaat-attagtagcg-atcagctgctatcactggcaggaaattactacttttgt-tgttaccattattttgaaaaatata
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GATGAAGACTCATAGAGATGCTTTTGTGACTTCATTAGCAAAGTTTACCTCACTACATTCACCAGCAGATATTAAGCAGAAAAATGTCGATGCAATTAAGgttagtcaaatttaacttctcttctatctggcttatgagcagcatataagctgaagtgattatcaattagcaattcttattctgtgttat-attacttcct--------
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 5'ss of exon 6
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtt--tgttctactt-actgtgatgcaaatattagtagcgatcagctgctatcactggcaggaaattactacttttgttgttaccattattttgaaaaatata
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AATGAAGACCCATAGAGATGCTTTTGTGACTTCACTAGCGAAGTTCACTTCACTTCACTCCCCAGCTGATATCAAGCAGAGAAATATTGAAGCCATTAAGgttggtattctacttcattaaggtttacgtgattgttgtttgtaatagttcgctgtaccaaaaaaacatgatatgtatcttgagtatactttccccatct---
upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S264_74V6.1 (Physcomitrella patens), 5'ss of exon 7
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgt----------ttgttctacttactgtgatg----caaatatt-------agta-gcgatcagctgctat-cactggcaggaaattactacttttgttgttaccattattttg-aaaaatata---------------------------------
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TATGCGAACACAGCGTGACGCATTCCTTACGTCCCTTGCAAAGTTTACATCACTTCATTCTGCTGCAGATATCAAGCAAAAGAATATTGACGCTATCAAGgtattgacgcttttatggtcctggctatgttatttacaaacgttttatttgaatacgcgacctccaaatgtacagttgaaggatctcagttgctttatgtacatttttgctacacgagaatttatgaggttctctaatatccactgttacatcacagMapped 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|572171|gb|D41682.1|D41682EST: AAGCCATTAAG GCAATTCTATTAATTGCAGATGAAGATGGAAATTACTTGCAAGAAGCATGG
genomic: AAGCCATTAAGgtttgttcta ... tgcttcacagGCAATTCTATTAATTGCAGATGAAGATGGAAATTACTTGCAAGAAGCATGG
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGAAGACTCAAAGGGATGCATTTGTCACTTCACTTGCTAAGTTTACATCACTTCACTCGGCTGCGGATATTAAGCAGAAAAATATTGAAGCCATTAAGgtttgttctacttactgtgatgcaaatattagtagcgatcagctgctatcactggcaggaaattactacttttgttgttaccattattttgaaaaatata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC