Sequence
atgc intronic sequence ATGC exonic sequenceAAAAAGCTAGTGGTTTTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaatctgtccaattattctaattttatggaattctgattatttactcaccgtgacag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g26870.5 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g26870.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006468_T04 (Zea mays), 5'ss of exon 10
AAAAAGCTAGTGGTTTTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttat------ggaattctgattatttactcaccgtgacag------------------------
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-----------------------------------------CATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGACAGgttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaacag
upper sequence: LOC_Os08g26870.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G053531_T01 (Zea mays), 5'ss of exon 10
AAAAAGCTAGTGGTTTTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccc---tgaatctgtccaattattctaattttatggaatt-----ctgattatt-tactcaccgtgacag----------
|| | |||| |||||||||||| | ||| |||||||||||| | |||||||||||| ||||| || | | | | ||||| ||| | ||| | | || | ||||| | | | | || |
-----------------------------------------CATCATGGAAGGACAAACTGATTCGGCTCAGGTCTAAGCGGGAGAACTGGGCCTGAGAGgttaaaagtctaaacttgtgtaactctgttttcctatctagaatttttcaatttgcagacccgttattgtttttaacttggtaacttttaacag
upper sequence: LOC_Os08g26870.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006468_T03 (Zea mays), 5'ss of exon 10
AAAAAGCTAGTGGTTTTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttat------ggaattctgattatttactcaccgtgacag--------------------
|| | |||| |||||||||||||| |||||||||||||||||| |||||||||||| ||||| || | || | ||||| ||| | | || | | | |||| || | | | | ||| |
-----------------------------------------CATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGacaggttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactccta
upper sequence: LOC_Os08g26870.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006468_T05 (Zea mays), 5'ss of exon 7
AAAAAGCTAGTGGTT--TTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaa--tctgtccaattattctaattttat------ggaattctgattatttactcaccgtgacag------------------------
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-TTCTATTGAAGGTTGATTGATTTATCTGT-TGGCTTCGACAGCATCATGGAAGGACAAACTGATGCGGCTGAGGTCTAAGCGGAAGAACTGGGCCTGACAGgttaaagtctaaacttgtgtagctctgtttttctatccagaaattgtcaatctgcagatctgtttttgtttttgacttgataacgctgacttgataactcctaacagMapped 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|86852660|gb|CI321780.1|CI321780EST: GGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAG CGTGGCTCGTCTCAATGGTGTAAATAAAGACGAAGCACTGTTGAATCCCAG
genomic: GGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagct ... accgtgacagCGTGGCTCGTCTCAATGGTGTAAATAAAGACGAAGCACTGTTGAATCCCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAAAGCTAGTGGTTTTGAAAAATTGACATTGTTTTTACAGCAACGTGGAGGGACAAACTGATGCTGCTGAGGTCTAAGCGGAAAAACTGGGCCTGAAAGgtttggagctcatgccctgaatctgtccaattattctaattttatggaattctgattatttactcaccgtgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT