Sequence
atgc intronic sequence ATGC exonic sequenceCTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47256.3 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G173989_T03 (Zea mays), 5'ss of exon 1
------------------------CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattcttcaatgcagttgcattattttcttat-attttgtaaattgttgcttgtag----------
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ATTGATGCTGTTCCTATTTTCAAGCTACTGGGAAAGCTGCCGAATTTGGACAGCTCAAAGATGGTTATATGTTCGACACATCAACTGGCATGTCACGAATgtgaggataatacaccttgccctccattgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G802854_T01 (Zea mays), 5'ss of exon 8
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattcttcaatgcagttgcattattttcttat-attttgtaaattgttgcttgtag----------
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CTACTGGGAAAGCTGCCAAATTTGGACAGCTGAAAGATGGTTATATGTTCGACACATCAACTGGCATGTCACGAATgtgaggataatacaccttgccctccgttgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G540589_T01 (Zea mays), 5'ss of exon 6
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattc--ttcaatgcagttgcattattttctta--tattttgtaaatt--------gttgcttgtag
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CTACTGGGAAAGCTGCTGAATTTGGTCAGCTGAAAGATGGTTATATGTTTGACACATCAACTGGCATGTCAAGAATgtgaggacaacacac-ctcgtactcgatttagt-cactagcattgttttttttgttagattgtgaatttgacattagctgcttatag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G173989_T01 (Zea mays), 5'ss of exon 8
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattcttcaatgcagttgcattattttcttat-attttgtaaattgttgcttgtag----------
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CTACTGGGAAAGCTGCCGAATTTGGACAGCTCAAAGATGGTTATATGTTCGACACATCAACTGGCATGTCACGAATgtgaggataatacaccttgccctccattgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA02G12480.1 (Glycine max), 5'ss of exon 8
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattctt--caatgcagttgcattatt---ttcttatattttgtaaattgttgcttgtag
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CCAGTGGGAAAGCAGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACGGGTCTCTCAAGGATgtatgcctgtgaaatttaatttttgttgtccatgca-taacattaacagatcttgacatgagagattgtgctgtttgtag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA01G06540.1 (Glycine max), 5'ss of exon 9
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattctt--caatgca----gttgcattattttcttatattttgtaaattgttgcttgtag
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CCAGTGGGAAAGCTGCAGAATTTGGTGCCCTAAAAGATGGCTATATGTTTGAGTGTACAACAGGTCAATCAAGGATgtatggctgtggaatttaattttgcttgtctatgcataacattaaaagatcttgacatgagagattgtgtgttgtttgtagMapped 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|58653630|gb|CK042310.1|CK042310EST: CAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGAT GTTGTTAAGTTCTCCAACATGTCCAGTTCTAGAGGCCCTTGG
genomic: CAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacat ... ttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTGACACGTCTACTGGCCTGTCGCGGATgtgaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtag
- - - - - - - - - - - - - - - - AAGATG