Sequence
atgc intronic sequence ATGC exonic sequenceGCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctcttatcttgtaattgtccataattgttaagtcatgttatttttcctcatccatgtgcttcgttcttgttctcacattttattttgatcttag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g43570.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 6
GCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttag-tctcttatcttgtaattgtccataattgttaagtcatgttatttttcctcatccatgtgcttcgttcttgttctcacattttattttgatcttag-----------
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GCATACTCAACAGTCGGTACACCTGATTATATTGCTCCAGAAGTGCTACTGAAGAAAGGATATGGAACGGAGTGTGACTGgttaggtttcttatcttgtaaatttctttaactattagacttggtgattctatcacccccgtgctttctgtaccttgatggatgcttggtatcacttctttttcttctttag
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G30640.1 (Arabidopsis thaliana), 5'ss of exon 7
GCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctcttatcttgtaattgtccataattgttaagtcatgttatttttcctcatccatgtgcttcgttcttgttctcacattttattttgatcttag
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GCTTTTTCTACAGTAGGAACTCCCGATTACATTGCCCCTGAGGTGCTGCTGAAGAAAGGGTATGGAATGGAGTGTGATTGgttagtgaaccagacccctctcttttacactctacaattaat-ttattcagttgaaattctaaaaactgttct-acaatag-------------------
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 5'ss of exon 7
GCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctcttatcttgtaattgtccataattgttaagtcatgttatttttcctcatccatgtgcttcgttcttgttctcacattttattttgatcttag
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GCTTATTCAACAGTTGGGACTCCCGACTACATTGCCCCAGAAGTACTGCTGAAGAAAGGATATGGAATGGAGTGTGATTGgttagt----taatttgaccttattagatgct-ttaattcttgtaatcatt--ttaaacttgcaactagacattgcttacag------------------
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 5'ss of exon 6
GCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctcttatc--ttgtaattgtccataattgttaagtcatgttatttttcctcatcca--tgtgcttcgttcttgttctcacattttattttgatcttag
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GCATATTCAACAGTCGGCACTCCAGATTATATTGCTCCTGAAGTACTGCTGAAGAAAGGCTATGGGATGGAGTGTGACTGgtatgcatcgaattgattcatattactgaaacttgctct-tgatgtccctggtctaagttgagctgtgccccata-tgacattgactcattatttggagttg--Mapped 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|84117450|gb|CD151217.1|CD151217EST: ATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTG GTGGTCCCTTGGTGCAATTATGTATGAAATGCTTGTTGGTTATCCTCCATT
genomic: ATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctct ... ttgatcttagGTGGTCCCTTGGTGCAATTATGTATGAAATGCTTGTTGGTTATCCTCCATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATATTCAACGGTTGGTACTCCTGATTACATTGCTCCAGAGGTTCTGCTGAAGAAAGGATATGGAATGGAATGTGACTGgttagtctcttatcttgtaattgtccataattgttaagtcatgttatttttcctcatccatgtgcttcgttcttgttctcacattttattttgatcttag
- - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA