Sequence
atgc intronic sequence ATGC exonic sequenceTGAAATTGCCGGAGCTACTTGCGTCTGTCAACATGGAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAAgtaagcaaatctttcttgattttattgttgtacatcactatagcagcatattcatttcccatcaatatacacaaatatgtgaagtcagttagcaccttca...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g34305.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g34305.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G484880_T03 (Zea mays), 5'ss of exon 10
TGAAATTGCCGGAGCTACTTGCGTCTGTCAACATGGAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAAgtaagcaaatctttcttgattttattgttgtacatcactatagcagcatattcatttcccatcaatatacacaaata--tgtgaagtcagttagcaccttca
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TAAAATTGCCAGAGCTACTTGCTTCTGTCAATATGGAGGAAGATGCGTTGAACAAGCTACAGCTGAAACTGCTGGACGTTCTCAAgtatgc-----tttcttg-cttcagagttatgctt-------gcaacctttttagcttaacctgaatcattccaatggctttactgtcag------------
upper sequence: LOC_Os11g34305.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G484880_T04 (Zea mays), 5'ss of exon 10
TGAAATTGCCGGAGCTACTTGCGTCTGTCAACATGGAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAAgtaagcaaatctttcttgattttattgttgtacatcactatagcagcatattcatt-tcccatcaatatacacaaatatgtgaagtcagttagcaccttca
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TAAAATTGCCAGAGCTACTTGCTTCTGTCAATATGGAGGAAGATGCGTTGAACAAGCTACAGCTGAAACTGCTGGACGTTCTCAAgtatgctttcttgcttcagagttatgcttgca-acctttttagcttaacctgaatcattccaatggc-tttactgtcaggtttcttcag------------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|38476001|gb|CF960134.1|CF960134EST: GAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAA GTTTCTGCAGAAGAATCAGAGTTCGTTCTTCCTTTCTGCGTATGATGGTGG
genomic: GAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAAgtaagcaaat ... ttcatggtagGTTTCTGCAGAAGAATCAGAGTTCGTTCTTCCTTTCTGCGTATGATGGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAATTGCCGGAGCTACTTGCGTCTGTCAACATGGAAGAAGATGCACTCAACAAACTACAGCAGAAATTGCTGGACATTCTCAAgtaagcaaatctttcttgattttattgttgtacatcactatagcagcatattcatttcccatcaatatacacaaatatgtgaagtcagttagcaccttca
- - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA