Sequence
atgc intronic sequence ATGC exonic sequencegtacgtacgcttgatcctagcttgtgtgcttctgaaattgtgacgtgatatgctctgaatttttcttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGCAGCATGTGCTGCGCC
Basic information
species | Oryza sativa |
transcript | LOC_Os01g65590.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g65590.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G431006_T01 (Zea mays), 3'ss of exon 6
------------------------gtacgt-acgcttgatcctagcttgtgtgcttctgaaattgtg-acgtgatatgctctgaatttttcttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGCAGCATGTGCTGCGCC
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gttatttctatatatatatatatcctgcattgcgttgtgtcatgtcatgtgcggccgcgttcctctgtgcctgacgtagt---gacgtacgtgtttccagGCCGATCCTTCACAGGTTCGCGAACGAGGACGTCTCGCTGGGCGCGTGGCTGATCGTGCTCGAGGTCGAGCACGTCGACGACCGAAGCATGTGCTGCGCG
upper sequence: LOC_Os01g65590.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G119265_T02 (Zea mays), 3'ss of exon 7
-------------gtacgtacgcttgatcctagcttgtgtgcttctgaaattgtg-acgtgatatgctctgaatttttcttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGCAGCATGTGCTGCGCC
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gttatgtttccggacacatatacataatgcca-cgtgtggccgcgttcgtctgtgcgtctgacgtgcg-tgcgtgcatcgt-ttccagGCCGATCCTGCACAGGTTCGCGAACGAGGACGTCTCGCTGGGGGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGGAGCATGTGCTGCGCGMapped 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|27548070|gb|CA766088.2|CA766088EST: CAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCA GCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCT
genomic: CAAATCTACGCCGTTTCCAAGGATCTCGCCGCCTACATCTCCATCAACCAgtacgtacgc ... cttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttgtgtgcttctgaaattgtgacgtgatatgctctgaatttttcttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGCAGCATGTGCTGCGCC
tttttcttcttct CT-rich tract
aatttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtacgcttgatcctagcttgtgtgcttctgaaattgtgacgtgatatgctctgaatttttcttcttctagGCCGATCCTGCACAGGTTCGCAAACGAGGACGTCTCCCTCGGCGCGTGGCTGATCGGGCTCGAGGTCGAGCACGTCGACGACCGCAGCATGTGCTGCGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC