Sequence
atgc intronic sequence ATGC exonic sequenceAGATCAGGATTCTGATGTGCATGGAAGTGGTGAGCAGCAGAAAAGTTCTGGAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAGgtgttttttctgatctcttgatatgtagtattgtttttaattcaacattgtatcccgcttatatgctctgtttggatcatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g54510.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g54510.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G039106_T03 (Zea mays), 5'ss of exon 1
AGATCAGGATTCTGATGTGCATGGAAGTGGTGAGCAGCAGAAAAGTTCTGGAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAGgtgttttttctgatctcttgatatgtagtattgtttttaattcaacattgtatcccgcttatatgctctgtttggatcatgcag
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AAATCAGGACCTTGATTTGCAAGGAAGCCTTGATCGGCAGAAGAGTTTCAAGATTGAGTCTACAACTGCTGAAGCTGAAGCTTTGTCGAAAGGACTACAGgtatgtttagtgatctcttgttgtgtagtactgtttg-aattttacattatgttccatttataa--tctgtatggatcatgcag
upper sequence: LOC_Os02g54510.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G052658_T01 (Zea mays), 5'ss of exon 2
AGATCAGGATTCTGATGTGCATGGAAGTGGTGAGCAGCAGAAAAGTTCTGGAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAGgtgttttttctgatctcttgatatgtagtattgtttttaattcaacattgtatcccgcttatatgctctgtttggatcatgcag
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AAATCAGGACCCTGATTTGCAAGGAAGCATTGATCGGCAGAAGAGCTCCAAGATTGAGTCTACAACTGCTGAAGCTGAAGCTTTGTCTAAAGGACTACAGgtatgttatgtgatctct----gtgtg-----------aattttactttatgtttcatttata--ctgtttatggatcatgcagMapped 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|29677568|gb|CB673843.1|CB673843EST: GAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAG ACTATAAAAAATGATGACTTGGAGGAAATTAGGGAGCTAGGTTCAGGTACT
genomic: GAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAGgtgttttttc ... gatcatgcagACTATAAAAAATGATGACTTGGAGGAAATTAGGGAGCTAGGTTCAGGTACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATCAGGATTCTGATGTGCATGGAAGTGGTGAGCAGCAGAAAAGTTCTGGAATTGAGGCTACAACCGCTGAAGCAGAAGCTTTATCAAAAGGACTACAGgtgttttttctgatctcttgatatgtagtattgtttttaattcaacattgtatcccgcttatatgctctgtttggatcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC