Sequence
atgc intronic sequence ATGC exonic sequenceGGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgaccaaagctggacaatccatgattctcctgtttttcactatactaatgttagtaaatattttgtttcctgtggaaaccag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g08400.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G017845_T02 (Zea mays), 5'ss of exon 7
GGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgaccaaagctggacaatccatgattctcctgttt--ttcactatactaatgttagtaaatattttgtttcctgtggaaaccag
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GGAATTTTACGAAGGACTGAATATGAAAGTGGAACAGCAGGTTCCTCTGCTTCTGGTCGAGCGACAAGCTTTGAATGAAGCCATGGAAGGAGAGAAGGCTgtatgtttactat-gctcaa-aacccaaaatttctttttctaccccactgtactgttagctgtagctattttgtttcttttggataccag
upper sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA14G08450.1 (Glycine max), 5'ss of exon 8
GGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgaccaaagctg--gacaatccatgattctcctgtttttcactatactaatgttagtaaatattttgtttcctgtggaaaccag------------
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AAGATTTTATGAAAGCCTAAATATGAAACTGGACCAACAAATTCCACTTCTATTGGTTGAAAGACAAGCACTGAATGAAGCAAGAGAAGGAGAGAAGAATgtaagagaaaatgcatttccatctgtttgctataaatataataactgataatttgattgtaatga-cattcagctgtctg-acatactaggaactatttttt
upper sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 8
GGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgaccaaagctggacaat-ccatgattctcctgtttttcactat---actaatgttagtaaatattttgtttcctgtggaaaccag--
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TGAATTTTACGAAGGCTTACATATGAAAGTGGAACAGCAAATTCCTATGCTTTTGGTGGAGAGATCAGCTCTAAACGAAGCTATGGAAGGAGAGAAACACgtaaaacctctatatcttattgatactatgtttatactctctctttctctctcgctcatttgtttcaacctacttctatctaattttgctgcag
upper sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv18s0001g11820.t01 (Vitis vinifera), 5'ss of exon 8
GGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgt-tgaccaaagctggacaatccatgattctcctgtttttcactatactaatg-ttagtaaatattttgtttcctgtggaaaccag----------
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AGAGTTTTATGAAGGTTTAAATATGAAAGTGCAGCAGCAAGTTCCATTACTCTTGGTCGAAAGACAAGCACTGAATGAAGCCATGGAAGGAGAAAAGAGTgtaagagcaaatgttattaaaaatttcatacctgctatgatacgcagggcacttcttcttagcaacaattaggactgcatttgacacaaaaaccttgtgcMapped 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|56158549|gb|AU095148.2|AU095148EST: TTCTTGTAGAAAGACAGGCTTTAAATGAAGCCCTGGAAGGAGAGAAGACT GGTCACCACCATCT
genomic: TTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgac ... tggaaaccagGGTCACCACCATCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAATTTTATGAAGGCCTAAATATGAAAGTGGAACAACAAGTTCCCTTGCTTCTTGTAGAAAGACAGGCTTTAAATGAAGCCATGGAAGGAGAGAAGACTgtatgttgaccaaagctggacaatccatgattctcctgtttttcactatactaatgttagtaaatattttgtttcctgtggaaaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA