Sequence
atgc intronic sequence ATGC exonic sequenceCCGCCGCCCCGCCGACGCCGAGGCGGATGAGTGGGGCGAGTTCCTCCACCTCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcccccctcgcattctctatcttctatcgatgttgatttaggcgttctgatggttgattaactgatagaggtactagtttggaaccttcgctt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69130.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G129155_T02 (Zea mays), 5'ss of exon 1
CCGCCGCCCCGCCGACGCCGAGGCGGATGAGTGGGGCGAGTTCCTCCACCTCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcccc---cctcgcattctctatcttctatcgatgttgatttaggcgttctgatggttgattaactg-atagaggtactagtttggaaccttcgctt
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GCGCCGCCCCGCCGACGCAGAGGCCGATGAGTGGGGCGAGTTCCTGCACCTCTCGGGGCGTCGCTTCTACGACTTCCGCGAAATCCGACGCGAGATCCAGgtccccatccctttgccttaatccctcgtgcggttatttg-gctggaataaacacttttac--ttgactgtgcgtgtacattcaatggataattattattggt-
upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G180335_T01 (Zea mays), 5'ss of exon 1
CCGCCGCCCCGCCGACGCCGAGGCGGATGAGTGGGGCGAGTTCCTCCACCTCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcccccctcgcattctctatcttctatcgat---gttgatttaggcgttctgat-ggttgattaactgatagaggtactagtttggaaccttcgctt
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GCGCCGACCCGCCGACGCCGAGGCCGATGAGTGGGGCGAGTTCCTCCACCTATCGGGGCGTCGCTTCTACGATTTCCGCGAAATTCGACGCGAGATCCAGgtccccatccctttgc-ctcattccatcgtgcggggattgtgccggaataaacagtcggtttggctgcccg--tattcaatgta-taattattattggtcggga
upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA13G32940.1 (Glycine max), 5'ss of exon 1
CCGCCGCCCCGCCGACGCCGAGGCGGATGAGTGGGGCGAGTTCCTCCACCTCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcccccctcgcattctctatcttctatcgatgttgatttaggcgttctgatggttgattaactgatagaggtactagtttggaaccttcgctt---
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GCGCAAGCCCAACCTCGACAACAACGACGAGTACGGCGAGTTCCTCCACCTCCCCGGCCGGAAATTCCACGATTTCTCCGAGATTCGCAGGGAAATTCAGgtctttccgctgccctactctcta-aacttctcatgtttagcttttacacgtgct--tgtttgttttgcttgcgtttactgtgtattcaacactgctttccctMapped 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|88718784|gb|CI742294.1|CI742294EST: TCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAG GCCGAAACAGACAGAGAGGCGGGTGGTAACAAAGGTGTGTCAGATAAGCAG
genomic: TCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcc ... atcaatgcagGCCGAAACAGACAGAGAGGCGGGTGGTAACAAAGGTGTGTCAGATAAGCAG
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
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CCGCCGCCCCGCCGACGCCGAGGCGGATGAGTGGGGCGAGTTCCTCCACCTCCCCGGCCGCCGCTTCTATGACTTCCGCGAAATCCGCCGCGAGATCCAGgttcccctcccccctcgcattctctatcttctatcgatgttgatttaggcgttctgatggttgattaactgatagaggtactagtttggaaccttcgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC