Sequence
atgc intronic sequence ATGC exonic sequenceATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgttagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt...
Basic information
species | Oryza sativa |
transcript | LOC_Os12g10784.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g10784.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G168510_T02 (Zea mays), 5'ss of exon 9
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgttagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt--------------
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ATGATCTATTTGTTGACCCAAGGAACCTTGAGTGGCTGAGGGAAAGCAACTGCCCAGTTgtaagtattggaaccttagtctcgccct-------aactgcataatccgcct-------tctttgtagacccatctaacttgttcctgattgaacacttccatcagtttatcaa
upper sequence: LOC_Os12g10784.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA09G38010.1 (Glycine max), 5'ss of exon 9
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtg--ttagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt-
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ATGATTTGATTGTTGATCCACGTAACTTGGAGTGGATGAGAGAAGCCAATTGTCCCATTgtaagtaaatctttcttttatagtatgctttaagatatactgtttgaacatttatatcatttct-tattgaatgaaa--ggatacaatcaagaagtgcatttt
upper sequence: LOC_Os12g10784.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA18G48370.1 (Glycine max), 5'ss of exon 8
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtg--ttagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt--
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-TGATTTGATTGTTGATCCACGTAACTTGGAGTGGATGAGAGAAGCCAATTGTCCCATTGtaagtaaatctttcttttatagtatgctttaagatatactgtttgaacatttatatcatttct-tattgaatg--taaggatacagttgagaagggcattttc
upper sequence: LOC_Os12g10784.3 (Oryza sativa), 5'ss of exon 9
lower sequence: AT1G79500.2 (Arabidopsis thaliana), 5'ss of exon 9
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgt-tagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt--------
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ATGATTTGATAGTAGATCCACGAAACTTCGAGTGGATGAGAGAAGCTAATTGTCCTGTTgtatgtatcttgctccatccttttttttctttttcatgttgcttattctgctttatgttcttcaatctgcaatctacaatttaacatacac-gtttaatttattggcag
upper sequence: LOC_Os12g10784.3 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 8
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgttagcactttattgttgtgcagaagcagaactgcgtaatctacc-tgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt
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ATGATCTGATTGTTGATCCACGCAACTTGGAGTGGATGAGGGAAGCTAATTGTCCTATTgtaagtacttatccatttcaaccatccatctcttgaaattgatacattgttgctaaagcagtcatgttcttgtggcagttgtaagttaaattgcataaat-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|157651751|gb|EX451385.1|EX451385EST: TTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTT GTAGCTGATGTAACGCATGCTCTACAACAGCCTGCTGGAAAAAAG
genomic: TTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgtta ... tacatttcagGTAGCTGATGTAACGCATGCTCTACAACAGCCTGCTGGAAAAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATTGTCCAGTTgtaagtgttagcactttattgttgtgcagaagcagaactgcgtaatctacctgatgacttctgtgttgatttgtcctgcttgcttctgattgatgaaatt
- - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - AGAAGC