Sequence
atgc intronic sequence ATGC exonic sequenceGAAACTCCAGAAGCTTTTCCACTTCCTAGTGACGTGGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactactagttgaacacacatagcgtactttaggacagcaagagctcataatttttgtgttactagtaatttcgtaaatgtcatactggaccag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g62810.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g62810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G302245_T01 (Zea mays), 5'ss of exon 1
---------------GAAACTCCAGAAGCTTTTCCACTTCCTAGTGACGTGGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactactagttgaacacacatagcgtactttaggacagcaagagctcataatttttgtgttactagtaatttcgtaaatgtcatactggaccag
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TATTATACCTCTCAGGAGACTCCAGAGGCTTTTCCACTTCCTAGAGGCGTCGCAATAGTGCGGGCAGATGCTGGATGGGCTCACTGTGTTGCAATAACAGgtatttagcgatccaagttcc-------tagtttcgatcatataca----atcatatttgtggtattg---ttcttataatttttttgctggaacag
upper sequence: LOC_Os01g62810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G337819_T02 (Zea mays), 5'ss of exon 3
GAAACTCCAGAAGCTTTTCCACTTCCTAGTGACGTGGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactactagttgaacacacatagcgtactttaggacagcaagagctcataatttttgtgttactagtaatttcgtaaatgtcatactggaccag
|| |||||||||||||||||||||||||| || | |||||| | |||||||||||||||||||| |||||||||||||||||||| | | | | | | || ||| | | || |||||||| | || || | | ||| ||| | ||||| |||
GAGACTCCAGAAGCTTTTCCACTTCCTAGCAGTGTCGTGATAGTGCGCGCTGATGCTGGATGGGCTCACTGTGTTGCAATAACTGgtatttagcaatccaagtccctactccctagtttcgatc--taaacaatcataattatggtattgtt------cttataattgttttgctggaacag
upper sequence: LOC_Os01g62810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G55580.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAACTCCAGAAGCTTTTCCACTTCCTAGTGACGTGGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactactagttgaacacacatagcgtactttaggacagcaagagctcataatttttgtgttactagtaatttcgtaaatgtcatactggaccag
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GAGACTCCAGAGCCATTTCCTCTTCCTCCAGAGGTTTGTGTACAGAAAGCTGAAGCTGGATGGGCTCATTGTGTGGCAGTAACAGgta-acattttcatgagcttacagag-acatttgtgtcca-----agttcatagctttaattgtcttattgaatacag-------------------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|29664300|gb|CB660575.1|CB660575EST: GGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTG ATGAAGGGGATGTCTATACATGGGGTTGGAAAGAATGTGTTCCAACAGGAA
genomic: GGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactact ... actggaccagATGAAGGGGATGTCTATACATGGGGTTGGAAAGAATGTGTTCCAACAGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAACTCCAGAAGCTTTTCCACTTCCTAGTGACGTGGCAATAGTGAGAGCTGATGCTGGATGGGCTCATTGTGTTGCAATAACTGgtatactactagttgaacacacatagcgtactttaggacagcaagagctcataatttttgtgttactagtaatttcgtaaatgtcatactggaccag
- - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA