Sequence
atgc intronic sequence ATGC exonic sequenceGGTATGAGCCCAGATGTTGTGACTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAGgcatgtccactatttttctactccttagcatttagtaacttaaatatcatggattgtagcaaatcctcatcctaaatttctgttgaaattctgaatactt...
Basic information
species | Oryza sativa |
transcript | LOC_Os06g49670.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g49670.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G127360_T01 (Zea mays), 5'ss of exon 2
GGTATGAGCCCAGATGTTGTGACTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAGgcatgtccactatttttctactccttagcatttagtaacttaaatatcatggattgtagcaaatcctcatcctaaatttctgttgaaattctgaatactt
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GGTATGAGCCCAGATGTTGTGACATACACTACACTTATGAAGACATTCATGAGAGCAAAGAAATTTGAAAAGgtctgccattttatctcctcttttgtaaaattagaatagccacacatggtaacatgcacagaatattaactgttggttatgattatggaaggttttgttt
upper sequence: LOC_Os06g49670.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G028108_T03 (Zea mays), 5'ss of exon 3
GGTATGAGCCCAGATGTTGTGACTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAGgcatgtccactatttttctactccttagcatttagtaacttaaata-tcatggattgtagcaaatcctca-tcctaaatttctgttgaaattctgaatactt------
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GGTATGAGCCCAGATGTTGTGACATACACTACACTTATGAAGACATTCATGAGAGCAAAGAAATTTGAAAAGgtctg-ccatt--ttatctcctcttttg---tta--aattagaatagccacgcatggtaacatgcacagaatattaactgttggttatgattatggaaggtcttgtttMapped 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|27547470|gb|CA765633.2|CA765633EST: CTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAG GTGTCAGAAGTATATAAGGAGATGGAGGGTGCTTGGTTGTACTCCTGATAG
genomic: CTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAGgcatgtccac ... tcctgcatagGTGTCAGAAGTATATAAGGAGATGGAGGGTGCT-GGTTGTACTCCTGATAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTATGAGCCCAGATGTTGTGACTTACACAACACTTATGAAGGCTTTCATGAGAGCAAAGAAATTTGAAAAGgcatgtccactatttttctactccttagcatttagtaacttaaatatcatggattgtagcaaatcctcatcctaaatttctgttgaaattctgaatactt
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA