Sequence
atgc intronic sequence ATGC exonic sequenceGTAAATGCTCGCTGTGCAATGAAATTGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGAgtatgctcctttctatgatctatgatttgttcttcttttatattttgcaaggatgaacctggttaactaggctcccacattcttttgctacttttctatttctactgagacgtctgagaacgcttgagtagatttagctcattttgttttatgtatcagctgctatctgatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g14050.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g14050.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G144403_T02 (Zea mays), 5'ss of exon 2
GTAAATGCTCGCTGTGCAATGAAATTGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGAgtatgctcctttctatgatctatgatttgttcttcttttatattttgcaaggatgaacctggttaactaggctcccacattc-ttttgctacttttctatttctactgagacgtctgagaacgcttgagtagatttagctcattttgttttatgtatcagctgctatctgatgcag
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GTAAATGCTCGCTGTGCAGTGAGACTGCGGAAGAGGATACAACATGAAGAGATGAAATCTGCCTACCAACGAAGGgtatgcacctt-----aattttctgttgctgcactttttaaatattgcatggataagtattgttgactaggctggaaatttcattctactccttttcatttcctt-----------------------------------------------------------------------
upper sequence: LOC_Os01g14050.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G144403_T01 (Zea mays), 5'ss of exon 3
GTAAATGCTCGCTGTGCAATGAAATTGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGAgtatgctcctttctatgatctatgatttgttcttcttttatattttgcaaggatgaacctggttaactaggctcccacattc-ttttgctacttttctatttctactgag--acgtctgagaacgcttgagtagatttagctcattttgttttatgtatcagctgctatctgatgcag
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GTAAATGCTCGCTGTGCAGTGAGACTGCGGAAGAGGATACAACATGAAGAGATGAAATCTGCCTACCAACGAAGGgtatgcacctt-----aattttctgttgctgcactttttaaatattgcatggataagtattgttgactaggctggaaatttcattctactccttttcatttccttcttttttatgactgttcctgcctgtgtacatccagctcatattgttttatgtatcag----------------Mapped 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|88367814|gb|CI570553.1|CI570553EST: TGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGA AATCAGTACGCTGGTTAAATTATGCAATAAAAAAGATGTGGC-TATGTGTA
genomic: TGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGAgtatgctcct ... tctgatgcagAATCAGTACGCTGGTTAAATTATGCAATAAAAAAGATGTGGCCTATCTGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAAATGCTCGCTGTGCAATGAAATTGCGGAAGAGAATACAACATGAAGAAATGAAATCTGCCTACCAACGAAGAgtatgctcctttctatgatctatgatttgttcttcttttatattttgcaaggatgaacctggttaactaggctcccacattcttttgctacttttctatttctactgagacgtctgagaacgcttgagtagatttagctcattttgttttatgtatcagctgctatctgatgcag
- - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA