Sequence
atgc intronic sequence ATGC exonic sequencegtacgtgtgagcggtgccgctgattttttcttctttttttttttaattttttttgggtctgatttcgtttttttttttgttcgtggccgccgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
Basic information
species | Oryza sativa |
transcript | LOC_Os07g24190.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 1
gtacgtgtgagcggtgccgctgattttttcttctttttttttttaatttt----ttttgggtctgatttcgtttttt------tttttgttcgtggccg---ccgcgcagCCGAAGCCGCTCCGGC---AGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
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gtacatgcgcgc--tccaattcctcctcccggctggcttgcgagagagcgagcattatggagctgatttttctctctctttaattttcattttctggcgtgtctgtgcagCCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGAGCCCTTCGTGGCGTGCAACG---
upper sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 1
------gtacgtgtgagcggtgccg-ctgattttt--------tcttctttttttttttaattttttttgggtctga--tttcgtttttttttttgttcgtggccgc---cgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
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gtacgcgcgcgcttcaatttttccggctggcttgcgagaggagcgagcgttacgttgctgttttttttccctttctaacttttgctgtctgctgtgtgcgcgctcgcgtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGACCCCTTCGTGGCGTGCAACGAGTMapped 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|88720692|gb|CI743991.1|CI743991EST: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG CCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgtgtga ... cgccgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattttttttgggtctgatttcgtttttttttttgttcgtggccgccgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
atttcgtttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtgtgagcggtgccgctgattttttcttctttttttttttaattttttttgggtctgatttcgtttttttttttgttcgtggccgccgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGACGGCG