Sequence
atgc intronic sequence ATGC exonic sequenceTAGGGGAGTGGCTAAACCATATCCAGAGTATCATGGTCGGTGCTTCGTGGATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAGgtttttttttcttcaccagcttctggagatgctctaattgaattggtttacttattagtaaagggagaatgcagagaatgttttttgcacctacattctt...
Basic information
species | Oryza sativa |
transcript | LOC_Os08g44260.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G046050_T01 (Zea mays), 5'ss of exon 1
TAGGGGAGTGGCTAAACCATATCCAGAGTATCATGGTCGGTGCTTCGTGGATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAGgtttttttttc--ttcaccagcttctggagatgctctaattgaattggtttacttattagtaaagggagaatgcagagaatg-ttttttgcacctacattctt----
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TGGGGGAATGGCTAAACCATATCCAGAATATTCTGGTTGGTGCTTCATGGATTGCTGCACAAATTTCAGAAGAAGCAGCGTCAGTTCTTGTACATTACAGgtttttatcttgatcccccagtctctaa-----ttcccatttaatctatttactg--tggtaagtagagattacaatggataattttttatccttatgtgtgttgac
upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G449163_T01 (Zea mays), 5'ss of exon 5
TAGGGGAGTGGCTAAACCATATCCAGAGTATCATGGTCGGTGCTTCGTGGATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAGgtttttttttc--ttcaccagcttctggagatgctctaattgaattggtttacttattagtaaagggagaatgcagagaatg-ttttttgcacctacattctt----
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TGGGGGAATGGCTAAACCATATCCAGAATATTCTGGTTGGTGCTTCATGGATTGCTGCACAAATTTCAGAAGAAGCAGCGTCAGTTCTTGTACATTGCAGgtttttatcttgatccctcagtctctaa-----ttcccatttaatctatttactg--tggtaagtagagattacaatggataattttttatccttacgtgtgttgacMapped 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|29675876|gb|CB672151.1|CB672151EST: ATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAG TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCT
genomic: ATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAGgttttttttt ... gtttttgcagTGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGGGGAGTGGCTAAACCATATCCAGAGTATCATGGTCGGTGCTTCGTGGATTGCTGCACAAATTGTCCAAGAATCAGCTTCTGTTCTCGTCCATTGCAGgtttttttttcttcaccagcttctggagatgctctaattgaattggtttacttattagtaaagggagaatgcagagaatgttttttgcacctacattctt
- - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT