Sequence
atgc intronic sequence ATGC exonic sequenceGGAGGCCGGGCTCGGCGGGAGCGACGACGGGGACGCCGACTACGACTTCGCCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAGgtgatcccgggttcgcgcgcgccctgtgggcgatgagtgctttggaatggcgtgggggtggtgggggcgtagctcgtggttcgatctgtcacggggtggg...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g41470.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 1
GGAGGCCGGGCTCGGCGGGAGCGACGACGGGGACGCCGACTACGACTTCGCCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAGgtgatcccgggttcgcg--cgcgccctgtgggcgatgagtgctt---tggaatggcgtgggggtggtgggggcgtagctcgtggttcgatctgtcacggggtggg
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GGAGGCCGGTCTCGCCGCCAGCGACGACGGAGACGCCGACTACGACTTTGCGGACCACGACTCCGACGACTCCGCGGAGCTCATCTCCCACAGACAGCAGgtgatctccggctcccggccgtgggtggtgcgtggcgtgtgtgagagtggatctgcttctgtacggtgaatgcggaaatggaggattg-tgaatctaggcg----
upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 1
GGAGGCCGGGCTCGGCGGGAGCGACGACGGGGACGCCGACTACGACTTCGCCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAGgtgatcccgggttcgcgcgcgccctgtgggcgatgagtgctttggaatggcgtgggggtggtg----ggggcgtagctcgtggttcgatctgtcacggggtggg--
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GGAGGCTGGTCTCGCCGCCAGCGACGACGGAGACGCAGACTACGACTTCGCGGACCACGACTCCGACGACTCCGCGGAGCTCCTCTCCCACAGACAGCAGgtgatctccgggtcccggtc-----gtgggtggtgcgtgccgtgtgtgagagtggatctgcttctgtacggtgaatgccggaattggagg-gttgtgaatctaggcMapped 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|29623493|gb|CB628504.1|CB628504EST: CCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAG CAAAATTACAGTATATTAAGTGAAGCCGATATACAACAGCGCCAAGAGGAT
genomic: CCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAGgtgatcccgg ... tatgccccagCAAAATTACAGTATATTAAGTGAAGCCGATATACAACAGCGCCAAGAGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGGCCGGGCTCGGCGGGAGCGACGACGGGGACGCCGACTACGACTTCGCCGACCACGACTCCGACGATTCCGCGGAGCTCCTCTCGCACCGGCAGCAGgtgatcccgggttcgcgcgcgccctgtgggcgatgagtgctttggaatggcgtgggggtggtgggggcgtagctcgtggttcgatctgtcacggggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC