Sequence
atgc intronic sequence ATGC exonic sequenceGTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtcacttatcacctattattctgttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os04g43750.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g43750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G089767_T01 (Zea mays), 5'ss of exon 8
GTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaa-tagtcacttatcacctattattct-gttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag
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GTACGTGGATTACATCTTTGGAAATGAAACTGAGGCGAGGACCTTTGCTAAAGTTCGCGGTTGGGAGgtaactactcatatgtcccttgttattttcactaggttaataaagtttctaaaaggt-tctgaatgaaaatttatag
upper sequence: LOC_Os04g43750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 10
GTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtcacttatcacctattattctgttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag------------------
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ATATATGGATTATGTTTTTGGAAATGAAACTGAAGCAAGAACATTTTCTAAAGCTCAAGGCTGGGAGgtaatcattaattaacagatctgaaggcttgcagttttggtttaagttttaatttgtgtattttgactcttttcttattgtcctattgaacag
upper sequence: LOC_Os04g43750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA19G36630.1 (Glycine max), 5'ss of exon 10
GTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtcacttatcacctattattctgttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag------------------------
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GTATACGGACTTTGTTTTCGGAAATGAGACTGAAGCAAGAACATTTTCTAAAGTTCATGGCTGGGAGgtaagccttgtatgtca---aatttgtaggcttgcagttttggttttgaatgttaaccccttacatcttttgacccccccccccccctgttttttctag
upper sequence: LOC_Os04g43750.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA03G33910.1 (Glycine max), 5'ss of exon 10
GTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtcacttatca--cctattattctgttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag-------------
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GTATACGGACTTTGTTTTCGGATATGAGACTGAAGCAAGAACATTTTCTAAAGTTCATGGCTGGGAGgtaagccttgtatatcaaatttgtaggcttgcagttttggttttgaatgttaaaaaagttaacccccccccccccccctcttctttctagMapped 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|66921821|gb|CX108669.1|CX108669EST: TTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAG ACTGAGAATACTGAGGAGATTGCTTTGAAGATCTCGCAATTGCCTAAGGCT
genomic: TTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtca ... aaaattgtagACTGAGAATACTGAGGAGATTGCTTTGAAGATCTCGCAATTGCCTAAGGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGCTGACTATATTTTTGGAAATGAAACTGAAGCAAGGACCTTTGCTAAAGTTCGTGGTTGGGAGgtaatagtcacttatcacctattattctgttctgtgagtaaagtatttacaaattgtccattaaaaaaattgtag
- - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - AGCAAG