Sequence
atgc intronic sequence ATGC exonic sequenceGTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttccaactagcatgcagctcacaggattttttgcaccttgttttgttggatgtacataacctgaatgcacttgggtgtgatatttgttcattcat...
Basic information
species | Oryza sativa |
transcript | LOC_Os08g33830.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G178169_T01 (Zea mays), 5'ss of exon 8
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttccaactagcatgcagctcacaggattttttgcaccttgttttgttg-gatgtacataacctgaatgcacttgggtgtgatatttgttcattcat
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GTGTTTTCTGCTTTTGGTGCTGTTCAAAAAATTGCCATGTTTGAGAAGAATGGTGGAATGCAGGCTCTAATTCAATATCCAGgtatatgctcaccagtacgcccaacaggatatgctcttgactttggtacactgtgatacac-tgaatttattgcattggcacgtcgctgtaacttgcttac
upper sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G082174_T05 (Zea mays), 5'ss of exon 6
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttccaactagcatgcagctcacaggattt--tttgcaccttgttttgttg-gatgtacata-acctgaatgcacttgggtgtgatatttgttcattcat
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GTGTTTTCTGCTTTTGGAGCTGTTCAAAAAATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCTCTAATCCAATATCCAGgtatgtgctcacca--atgcacccaacaggatatgctcttgaccttggtgcactgtgatacatcgacaatttattgcattggcatgtcaccgtaacttgcct--
upper sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA09G37080.1 (Glycine max), 5'ss of exon 9
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtatt--ttccaactagcatgcagctcacaggattttttgcaccttgttttgttgg-atgtacataacctgaatgcacttgggtgtgatatttgttcattcat
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GTGTTCTCTGCATTTGGTACTGTCCAGAAAATTGCTATATTTGAAAAGAATGGTCAAACTCAGGCACTAATTCAGTACCCTGgtattaatcatatccaactgttagttctt--gaactagtagactgtgtcccctttttatatatatttcttaaatgtatacttct-tgatggttccatattaat
upper sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G01150.2 (Arabidopsis thaliana), 5'ss of exon 6
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttccaactagcatgcagctcacaggattttttgcaccttgttttgttggatgtacataacctgaatgcacttgggtgtga-tatttgttcattcat------------------------------
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GTGTTTTCTGCATATGGAACTGTCCAGAAGATTGCTATATTTGAGAAGAATGGTTCAACGCAAGCATTAATTCAATACTCTGgtacat-ccgactgctgatctgcactaatgtttgattgtgacccgattcaaccgttttataaattctgaa--catttatttgttactgtacaatcatcttcagtttcgtgctttctatttcgtctctgtag
upper sequence: LOC_Os08g33830.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv14s0108g01030.t01 (Vitis vinifera), 5'ss of exon 8
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttc-caactagcatgc-agctcacaggattttttgcaccttgttttgttggatgtacataacctgaatgcacttgggtgtgatatttgttcattcat
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GTATTCTCTGCATTTGGTACTGTCCAGAAAATTGCCATATTTGAGAAGAATGGTGGGATGCAGGCTCTAATTCAATATCCTGgtagttcctctatccctatgttaggctatctaccgtttatcatttcaggacatcttttgttcat--tttcattatcctgattctaaatcagtggctgtttagMapped 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|218479197|gb|FG960287.1|FG960287EST: TGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAG ACATCACAACGGCAGCAGTTGCTAAACAAGCTTTGGAAGGGCACTGCATAT
genomic: TGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttcca ... tttattgcagACATCACAACGGCAGCAGTTGCTAAACAAGCTTTGGAAGGGCACTGCATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGTTCTCTGCTTTTGGTACTGTTCAAAAGATTGCAATGTTTGAGAAGAATGGTGGAATGCAGGCCTTAATTCAATATCCAGgtattttccaactagcatgcagctcacaggattttttgcaccttgttttgttggatgtacataacctgaatgcacttgggtgtgatatttgttcattcat
- - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA