Sequence
atgc intronic sequence ATGC exonic sequencegtgtctatgcaaccatgttctcaaatactctgtttgagtgcattgttatggattatcttaacttattcttctttttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTGATTTCAAACTTCCCTGGCGAGGATCCAAAAATGCTATCCAACTTTAAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os12g44330.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g44330.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G147811_T03 (Zea mays), 3'ss of exon 11
--gtgtctatgcaaccatgttctcaaatactctgtttgagtgcattgttatggattatcttaacttattcttctttttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTGATTTCAAACTTCCCTGGCGAGGATCCAAAAATGCTATCCAACTTTAAAG
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gtgcgtctatggaaccataccctctttgatatgttctgtttggataatt-tgaatt--cttcatttactatacttctgtttgcagGCTGTGAGAAGGTTAATTTTGAACATTAAACCAAAGGATGTTGGTTCTTTGTTTCCGAACTTTCCTGGCGAGGATCCAAAAATGCTATCCAGTTTTAAGG
upper sequence: LOC_Os12g44330.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G151236_T03 (Zea mays), 3'ss of exon 10
--gtgtctatgcaaccatgttctcaaatactctgttt-gagtgcattgttatggattatcttaacttattcttctttttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTGATTTCAAACTTCCCTGGCGAGGATCCAAAAATGCTATCCAACTTTAAAG
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gtgtgtctgtggaaccataccctctt-tactatgttttgtttgggttatt-tgaatt--ccttatttactatacttctgtctgcagGCTGTGAGAAGGTTAATTTTGAACATTAAACCAAAGGATGTCGGTTTTTTGATTTTGAACTCTCCTGGCGAGGATCCAAAAATGCTATCCAGTTTTAAAGMapped 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|88974595|gb|CI022136.1|CI022136EST: ACCAAGATCTCAACTTTCATGCCACTGAGGAGGATCCTGTGACTAAAAAG GCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTG
genomic: ACCAAGATCTCAACTTTCATGCCACTGAGGAGGATCCTGTGACTAAAAAGgtgtctatgc ... tttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtttgagtgcattgttatggattatcttaacttattcttctttttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTGATTTCAAACTTCCCTGGCGAGGATCCAAAAATGCTATCCAACTTTAAAG
tcttaac putative branch site (score: 2)
ttatcttaacttattc CT-rich tract
attatcttaacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtctatgcaaccatgttctcaaatactctgtttgagtgcattgttatggattatcttaacttattcttctttttcttgcagGCTGTGACAAGGATGATTTTGAACATTAAGCCAAAGGATATTGGTTCCTTGATTTCAAACTTCCCTGGCGAGGATCCAAAAATGCTATCCAACTTTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT