Sequence
atgc intronic sequence ATGC exonic sequenceATCAACTTGCAGGATGCCGTCAACTTCCCTTCCAGAACACTTGATTGCCGAGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattctactagtctactctatcatccatgcatcatcatatcctgtcaattaaaaaaattgcgtacatgtatgtaataccaagagtattaattaat...
Basic information
species | Oryza sativa |
transcript | LOC_Os06g51460.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g51460.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G166889_T01 (Zea mays), 5'ss of exon 3
ATCAACTTGCAGGATGCCGTCAACTTCCCTTCCAGAACACTTGATTGCCGAGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattctactagtctactctatcatccatgcatcatcatatcctgtcaattaaaaaaattgcgtacatgtatgtaataccaagagtattaattaat--
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GTCAACTTAAAAGACGCCGTCAACATCCCGTCCAGAACCCTTGACTGCCGAGGTTGCTGTGCTGGCTTCTTTTGCCCTCATGGGCTCACTTGCATGATACgtaagtaatagga-agcctag-ctactgccc-----tcagcatgtcctgccagcaataatggtcttgtg-atatatata-tatctatctattcacttcacag
upper sequence: LOC_Os06g51460.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA12G08290.1 (Glycine max), 5'ss of exon 1
ATCAACTTGCAG-GATGCCGTCAACTTCCCTTCCAGAACACTTGATTGCCGAGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattctactagtctactctatcatccatgcatcatcatatcctgtcaattaaaaaaattgcgtacatgtatgtaataccaagagtattaattaat--
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-GACATTGGTAGTAACAAAAAGGACATACCTATTAGATCCCTTGATTGTCAACCTTGTTGTGAAGGCTTCTTTTGCCCTCATGGTCTCACTTGCATGATACgtaagtattatttatgcgcatacaacaaaagttacaaaacta-attatttttatttttctatgtacttttgc-cattgattgacgtatgttctaccgaagat
upper sequence: LOC_Os06g51460.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv08s0040g01620.t01 (Vitis vinifera), 5'ss of exon 4
ATCAACTTGCAGGATGCCGTCAACTTCCCTTCCAGAACACTTGATTGCCGAGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattctactagtctactctatcatccatgcatcatcatatcctgtcaattaaaaaaattgcgtacatgtatgtaataccaagagtatta-attaat-------
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GTTGAACTCAAAAATTCGAAGGACATGCCTTCAAGGACTCGTGACTGTCAACCTTGTTGTGCGGGTTTCTTCTGCCCCCAGGGCCTTACTTGCATGATACgtaaggatatgataa--caactctatttatcctttggaatcat----tgaaagctttacagcctt--tacttttatttcatctcaagaatcctgcattgttggtggtgMapped 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|3761844|gb|C99092.1|C99092EST: AGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATAC CTTGCCCTTTGGGAGCATACTGTCCAGAATCTACCTTAAACAAAACCACCG
genomic: AGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattc ... atgcatgcagCTTGCCCTTTGGGAGCATACTGTCCAGAATCTACCTTAAACAAAACCACCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCAACTTGCAGGATGCCGTCAACTTCCCTTCCAGAACACTTGATTGCCGAGGCTGCTGTGCTGGATTCTTCTGCCCTCACGGCCTCACTTGCATGATACgtacgcattctactagtctactctatcatccatgcatcatcatatcctgtcaattaaaaaaattgcgtacatgtatgtaataccaagagtattaattaat
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA