Sequence
atgc intronic sequence ATGC exonic sequenceGTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAAgtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagatttgtccatgttattgactgctctgttgctattttaatag
Basic information
species | Oryza sativa |
transcript | LOC_Os11g33240.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G064023_T01 (Zea mays), 5'ss of exon 11
GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAAgtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagat-ttgtccatgttattgactgctctgttgctattttaatag
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GTTGAGAGCGAATTTCAAAAAGCTTATGACAATGGATTGCCAAAATCAAAgtaaacttgggatttgtactgtc-----actcattttatgtgttcagtggttgctttccatggtgttca-----caattattgtttgtatag
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G063851_T01 (Zea mays), 5'ss of exon 11
GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAAgtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagatttgtccatgttattgactgctctgttgctattttaatag
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GTTGAGAGTGAATTTCAAAAGGCTTATGACAATGGATTGCCAAAGTCAAAgtaaacttgggatttgtactgcctccca--ttttcttatgtgttcagtgg-ttgctttctatggtggtcaaaattattgtttgtatag---
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G063909_T02 (Zea mays), 5'ss of exon 9
GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCC-AAAATCAAAgtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagat-ttgtccatgttattgactgctctgttgctattttaatag
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GTTGAGAGCGAATTTCAAAAAGCTTACGGCAATGGATTGCCCAAAATCAAAgtaaacttgggatt----ccaccc-----attttcttaagtgttcagtggttgcttttcatggtgttca-----caattattgtttgtatagMapped 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|38470398|gb|CF954529.1|CF954529EST: GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAA GTTCTGGGAGCCTACCTATAAAGATAGCTTAAATTTGATAGCTCGCCTTCC
genomic: GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAAgtatgcttgg ... attttaatagGTTCTGGGAGCCTACCTATGAAGATTGCTTAAATTTGATAGCTCGCCTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGAGAGTGAGTTTCAAAAAGCTTACGACAAAGGAATGCCAAAATCAAAgtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagatttgtccatgttattgactgctctgttgctattttaatag
- - - - - - - - - - - - - - - AAGGAA