Sequence
atgc intronic sequence ATGC exonic sequenceAACATGCTGCTTTGTTAACTGCACGAGCTGGAGCCAGAGATCCATCTGCTGTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgctgttgttattgttgttagttcaagaaaaaaagtgtgattatgatattatataacatgttaagccaaaatgtgttccacttggtggagatgg...
Basic information
species | Oryza sativa |
transcript | LOC_Os09g21780.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os09g21780.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G055917_T02 (Zea mays), 5'ss of exon 7
----AACATGCTGCTTTGTTAACTGCACGAGCTGGAGCCAGAGATCCATCTGCTGTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgctgttgttattgttgttagttcaagaaaaaaagtgtgattatgatattatataacatgttaagccaaaatgtgttccacttggtggagatgg
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GAGAAACATGCAGCTCTGTTAACTGCAAGAGCTGGTGCTAGAGATCCATCTGCTGTGCCATCTATATGCCGCATCTCTGCTGCTCTTCAGTATAATTTTGgtatgttcagttgtactggcaatgttatgtgttttggttcaggaataca--tatgatcttttatgtcataaaccatgctaacctattatgcatgagtgtgtc--
upper sequence: LOC_Os09g21780.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G116196_T01 (Zea mays), 5'ss of exon 7
----AACATGCTGCTTTGTTAACTGCACGAGCTGGAGCCAGAGATCCATCTGCTGTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgctgttgttattgttgttagttcaagaaaaaaagtgtgattatgatattatataacatgttaagccaaaatgtgttccacttggtggagatgg
||||||| |||||||| |||||| ||||||| ||||||||||||||||||||||| || ||||||||||||||| ||||||||||||| || | ||| | | ||| | | || |||||| | ||| | | || ||||||| || ||| ||| || | || || | | | |
GAGAAACATGCAGCTTTGTTGACTGCAAGAGCTGGTGCCAGAGATCCATCTGCTGTGCCGTCTATATGCCGCATCTCTGCTGCTCTTCAGTATAACTTTGgtatggtcagtcatactgacattgttatgtgttttgattcaggaatgc--ttatgatcttttatgtcataaactatgttaacctattatacatagaagtgtc--
upper sequence: LOC_Os09g21780.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv14s0083g00990.t01 (Vitis vinifera), 5'ss of exon 7
----AACATGCTGCTTTGTTAACTGCACGAGCTGGAGCCAGAGATCCATCTGCTGTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgctgttgttattgttgttagttcaagaaaaaaagtgtgattatg-atattatataacatgtta-agccaaaatgtgttcca--cttggtgga-gatgg
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GAAAAAAATGCTGCTTTGTTAACTGCAAGAGCTGGTGCCAGGGATCCATCAGCAATTCCATCCATATGCCGAGTTTCTGCTGCTCTTCAATATCCTGCTGgtaagtt---------ttttgtttacctaagtttaagcatgcattggtgttggtggatagtgtattataggctatagatatgatgctcagtaacctttttggacaataaMapped 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|88340089|gb|CI650536.1|CI650536EST: GTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCT-G--- TTTCACCAGGTACAGAAGGCACTGATTCTGGCTTGGCATCAGTTCTAAATT
genomic: GTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgct ... ttgttaacagTTTCACCAGGTACAGAAGGCACTGATTCTGGCTTGGCATCAGTTCTAAATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACATGCTGCTTTGTTAACTGCACGAGCTGGAGCCAGAGATCCATCTGCTGTGCCATCCATATGCCGCATCTCTACTGCTCTTCAGTACAATTCTGGCAAgttcactgctgttgttattgttgttagttcaagaaaaaaagtgtgattatgatattatataacatgttaagccaaaatgtgttccacttggtggagatgg
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggag