Sequence
atgc intronic sequence ATGC exonic sequenceAAGTGACTCCCCAATGCCTCGAGGAGAGATTGTCATTGGTGGTCCCAATGTAACTAAAGGCTATTTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAGgtatgttgtcttgttaccaatatgttcgatgactacttcacggctcatagtaataaccttctatccacaataatttacataacctttgtacctcatttatcttgtgaag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g07110.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g07110.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G118286_T01 (Zea mays), 5'ss of exon 9
AAGTGACTCCCCAATGCCTCGAGGAGAGATTGTCATTGGTGGTCCCAATGTAACTAAAGGCTATTTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAGgtatgttgtcttgttaccaatatgttcgatgactacttcacggctcatagtaataaccttctatccacaataatttacataacctttgtacctcatttatcttgtgaag
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TGCTGATTTACCAATGCCTCGGGGAGAAATTGTCATTGGAGGTCCAAATATAACTAAAGGCTATTTCAAGAATGAAGCTAAAACAAATGAAGTCTACAAGgtatggtgttctcctaccaatatattcatagattgtttcaggcattgaact--ttaacttcttcacactttctgtaacaataaccacacaccacatatattatgtgaag
upper sequence: LOC_Os12g07110.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 5'ss of exon 10
AAGTGACTCCCCAATGCCTCGAGGAGAGATTGTCATTGGTGGTCCCAATGTAACTAAAGGCTATTTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAGgtatgttgtcttgttaccaatatgttcgatgactacttcacggct-catagtaataaccttctatccacaataat--ttacataacctttgtacctcatttatcttgtgaag------------------------
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AAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCAAAAATGAAGAGAAAACAAATGAAGTTTACAAGgtaaa--gctttggagattgtttatcc-acattctttttgtggttatatatatatagtactcttttcagaattctgaccaaagaataattgtaaactggacatgtaataaactttgttaatcttttgttgttgaagMapped 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|29622299|gb|CB627310.1|CB627310EST: TTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAG GATGACGAAAAAGGTATGCGATGGTTCTATTCTGGTGACATCGGGCGCTTC
genomic: TTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAGgtatgttgtc ... tcttgtgaagGATGACGAAAAAGGTATGCGATGGTTCTATTCTGGTGACATCGGGCGCTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGTGACTCCCCAATGCCTCGAGGAGAGATTGTCATTGGTGGTCCCAATGTAACTAAAGGCTATTTCAAGAATGAAGCTAAAACAAATGAAGTCTATAAGgtatgttgtcttgttaccaatatgttcgatgactacttcacggctcatagtaataaccttctatccacaataatttacataacctttgtacctcatttatcttgtgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC