Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaatggaatctccctgtatttttagaatgccaacccgttcattcttgagtgcatttaatgttcttaagtatgaatatgcatatcattgtagctgacatcatgtatgttaaattgttactctaaccagtttgatctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCGAGATGATCATAGGCAGGAGGGCTGTGGACAAGAGCCGGCCTAGCCGTGA
Basic information
species | Oryza sativa |
transcript | LOC_Os06g45280.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g45280.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G050701_T02 (Zea mays), 3'ss of exon 5
gtgagcaatggaatctccctgtatttttagaatgccaacccgttcattcttgagtgcatttaatgttcttaagtatgaatatgcatatcattgtagctgacatcatgtatgttaaattgttactctaac-cagtttgatctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCGAGATGATCATAGGCAGGAGGGCTGTGGACAAGAGCCGGCCTAGCCGTGA
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gtaagcaa--ggatttcc---tatcatcaagccaacaattcgaggataa--aaatgaactt---gtccccaagaatgaatagacac-tcatggtacttgacctagtcca-attatgttaatcctcaatcaccaattaacttgacgcagGCCATCTGACAGCACGAAGTGATGTTTATGGCTTTGGAGTCGTGCTTCTAGAGATGATTATTGGAAGAAGGGCTGTGGACGATAGCCGGCCGAGCCGTGA
upper sequence: LOC_Os06g45280.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G157115_T01 (Zea mays), 3'ss of exon 5
gtgagcaatggaatctccctgtatttttagaatgccaacccgttcattcttgagtgcatttaatgttcttaagtatgaatatgcatatcattgtagctgacatcatgtatgttaaattgttactctaacca--gtttgatctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCGAGATGATCATAGGCAGGAGGGCTGTGGACAAGAGCCGGCCTAGCCGTGA
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gtaagcaaggg--tttcc---tatcgtcaagccaacgatttgaggataa--aaatgagctt---gtccccaagaatgaatagacac-tcatgttacttgacttggtccaaat-attttaatcctcaaatcaccatttaacttgacgcagGCCATCTGACGGCACGAAGTGATGTTTATGGCTTCGGAGTGGTGCTTCTAGAGATGATTATCGGAAGAAGGGCTGTGGACAAGAGCCGGCCAAGCCGTGAMapped 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|33381081|gb|CF196424.1|CF196424EST: TACTTATGGCTATGCAGCTCCTGAATATGTCATGACAG GCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCG
genomic: TACTTATGGCTATGCAGCTCCTGAATATGTCATGACAGgtgagcaatg ... tctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagctgacatcatgtatgttaaattgttactctaaccagtttgatctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCGAGATGATCATAGGCAGGAGGGCTGTGGACAAGAGCCGGCCTAGCCGTGA
tatgttaaattgtta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaatggaatctccctgtatttttagaatgccaacccgttcattcttgagtgcatttaatgttcttaagtatgaatatgcatatcattgtagctgacatcatgtatgttaaattgttactctaaccagtttgatctgttacagGCCATCTGACAGCACGAAGTGATGTCTATGGCTTTGGTGTCGTCCTTCTCGAGATGATCATAGGCAGGAGGGCTGTGGACAAGAGCCGGCCTAGCCGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG