Sequence
atgc intronic sequence ATGC exonic sequencegtgaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47256.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G173989_T03 (Zea mays), 3'ss of exon 1
gtgaggacattacatactagcattcttcaatgcagttgcattattttcttat---attttgta--------aattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
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gtgaggataatacaccttgccctccattgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatagGTTGTTAAGTTCCCCAACGTGTCCAGTTCTGGAGGTCCTTGGGAAAAAACTGTCGTTTGAGATTGCTGTTGGACTCAATGGTCGAGTCTGG
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G540589_T01 (Zea mays), 3'ss of exon 6
gtgaggacattacatactagcattc--ttcaatgcagttgcattattttctta--tattttgtaaatt--------gttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGG--AAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
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gtgaggacaacacac-ctcgtactcgatttagt-cactagcattgttttttttgttagattgtgaatttgacattagctgcttatagGTTGTTAAGTACGCCAACATGTCCAGTTCTGGAGGCCCTTGGGAAAAAAAACTGTCGTTTGAGATTGCTGTTGGAATCAATGGTCGAGTCTGG
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G802854_T01 (Zea mays), 3'ss of exon 8
gtgaggacattacatactagcattcttcaatgcagttgcattattttcttat---attttgta--------aattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
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gtgaggataatacaccttgccctccgttgagtcactataattgtttttttgttagattttgagtttctgacattagtttcttatagGTTGTTAAGTTCCCCAACGTGTCCAGTTCTGGAGGTCCTTGGGAAAAAACTGTCGTTTGAGATTGCTGTTGGACTCAATGGTCGAGTCTGGMapped 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
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
attattttcttatatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggacattacatactagcattcttcaatgcagttgcattattttcttatattttgtaaattgttgcttgtagGTTGTTAAGTTCTCCAACATGTCCAATTCTAGAGGCCCTTGGAAAAAAACTTTCATTTGAGATTGCTGTTGGCCTGAATGGCCGAGTGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT