Sequence
atgc intronic sequence ATGC exonic sequenceCAAGACACTAGTTTATGATGATAGATCTGATGGAACTAGCACATGGAGGCATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCAgtaagtctatcaggaactggttgaatataattcacttaaacagttactgctagaccaagtgattgatgcctgtctactatgtttggatgtattaacatat...
Basic information
species | Oryza sativa |
transcript | LOC_Os09g28570.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G179045_T02 (Zea mays), 5'ss of exon 3
CAAGACACTAGTTTATGATGATAGATCTGATGGAACTAGCACATGGAGGCATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCAgtaagtctatcaggaactg-gttgaatataattcacttaaacagttactgctagaccaagtg-attgatgcctgtctactatgtttggatgtattaacatat
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CAAATCGTTGGTTTACGATGATAAATCTGACGGAACTTCCACTTGGAGGCGTGCTGTAAATGTGAATCTTGTTGCTGTTATCGATGGGACGCGCATTGCAgtaagcctcacatcaactatgcttgttgtaatagaattgaagtaataccgagtgctgctctgtgctaatatttgt-tgccttggtttaatgcatatatatt-
upper sequence: LOC_Os09g28570.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G147191_T02 (Zea mays), 5'ss of exon 3
CAAGACACTAGTTTATGATGATAGATCTGATGGAACTAGCACATGGAGGCATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCAgtaagtctatcaggaactggttgaatataattcacttaaacagttactgctagaccaagtgattgatgcctgtctactatgtttggatgtattaacatat--
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TAAAACACTAGTTTATGATGATACATCTGATGGAACTAGAACATGGAGGCATGCTGTTAATGTGAACCTTGTTGCTGTCATTGATGGTACTCGCATTGCAgtaagtcta-ctgttatttgtcaaaagaaattgttaagttgatcttccggtaactcaaattgtttatttataccaatggttattgctggtgt-ggtgtatcaMapped 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|29670807|gb|CB667082.1|CB667082EST: ATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCA AGTCAAATTATGCGATCTGGGAAGAAGCCTGGTGTCATAATAAATATTGGT
genomic: ATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCAgtaagtctat ... ttttcaccagAGTCAAATTATGCGATCTGGGAAGAAGCCTGGTGTCATAATAAATATTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAGACACTAGTTTATGATGATAGATCTGATGGAACTAGCACATGGAGGCATGCTGTAAATGTGAACCTTGTTGCTGTTATTGATGGTACTCGCATTGCAgtaagtctatcaggaactggttgaatataattcacttaaacagttactgctagaccaagtgattgatgcctgtctactatgtttggatgtattaacatat
- - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT