Sequence
atgc intronic sequence ATGC exonic sequence...actctgaatctttgtagtcatatctctagctcacacttgagaactataaattgtcgaattacactcgtttattcagttgctgctgtgtatttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCAGAAAAAGGAATTTAGGAGGAACAGGACTAGCTGGGATTGACTGCAAGTT
Basic information
species | Oryza sativa |
transcript | LOC_Os03g14510.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G170532_T02 (Zea mays), 3'ss of exon 6
actctgaatctttgtagtcatatctctagctcacact--tgagaactataaattgtcgaattacactcgtttattcagttgctgctgtgtatttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCAGAAAAAGGAATTTAGGAGGAACAGGACTAGCTGGGATTGACTGCAAGTT-
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--tcaaaattcgctatgtgatgtttcttgattgcaaagatcaaacgttccattttttgggcaaatcacagtggtaaatttgttgttgcgttggtgattacagTGCTGCAGTTGCTGAAAGGAAGAGACTTCAGAATAAGAAGGTGCTTTCACAGAAGAAGGAATTTAGACGGAACAGAACTAGCTGGGATTGA-TGCAAGGTA
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G170532_T01 (Zea mays), 3'ss of exon 6
actctgaatctttgtagtcatatctctagctcacact--tgagaactataaattgtcgaattacactcgtttattcagttgctgctgtgtatttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCAGAAAAAGGAATTTAGGAGGAACAGGACTAGCTGGGATTGACTGCAAGTT
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--tcaaaattcgctatgtgatgtttcttgattgcaaagatcaaacgttccattttttgggcaaatcacagtggtaaatttgttgttgcgttggtgattacagTGCTGCAGTTGCTGAAAGGAAGAGACTTCAGAATAAGAAGGTGCTTTCACAGAAGAAGGAATTTAGACGGAACAGAACTAGCTGGGATTGA-TGCAAG--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|88963934|gb|CI032851.1|CI032851EST: TATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAAT TGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCA
genomic: TATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAATgtaagctgct ... ttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaattgtcgaattacactcgtttattcagttgctgctgtgtatttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCAGAAAAAGGAATTTAGGAGGAACAGGACTAGCTGGGATTGACTGCAAGTT
tttcatttc CT-rich tract
tatttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actctgaatctttgtagtcatatctctagctcacacttgagaactataaattgtcgaattacactcgtttattcagttgctgctgtgtatttcatttcagTGCTGCAGCCGCTGAAAGGAAGAGACTTCAGAAGAAGAAAGTGCTTTCGCAGAAAAAGGAATTTAGGAGGAACAGGACTAGCTGGGATTGACTGCAAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA