Sequence
atgc intronic sequence ATGC exonic sequence...tttttgtttatttgttctgaaaagtatctttataatgaattgcatcccattggcatgtaatttcaaaaattttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g22640.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 8
-tttttgtttatttgtt---ctgaaaagtatctttataatgaattgcatcccattggcatgtaatttcaaaaatt--ttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
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ttttttgtttctgtatgtggctgggaaaaatgttttta------tgcattctgatatcatatcccatttggcactgatgacttgcttaccttttttttatccctagTGACTTGGAGCTTAAACCTCAGGGAAGACTTTCTGTTACTGTGGTAAAAGCAACTTCTTTGAGAAATAAGGAGATGATCGGTAAATCAGACCCTTATGTG
upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 9
tttttgtttatttgttctgaaaagtatctttataatga-attgcatcccattggcatgta-atttcaaaaattttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
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aaaaaataaagaaactgggaatgttaatttcaagttagtgctcaattatgtttagagttacactacataagcggcacct-tttttttttatttt-cttgcagTGAACTGGAGCTTAAACCCCAGGGAAAACTTGCACTGACTGTAGTGAAAGCGACTGCTTTAAAGAATATGGAAATGATTGGAAAGTCAGATCCTTATGTA
upper sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA03G02370.1 (Glycine max), 3'ss of exon 8
---tttttgtttatttgttctgaaaagtatctttataatgaattgcatcccattggcatgtaatttcaaaaattttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
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agggttaaaaaagaaaaaactgggaatgtcaatttcaatg--ttaatgctcaattatgtttacagtcaaactacataaccagcat-ctttttttttcttgcagTGAACTGGAGCTTAAACCCCAGGGAAAACTTGCACTGACTGTTGTCAAAGCAACTGCTTTAAAGAATATGGAAATGATTGGAAAGTCAGATCCTTATGTAMapped 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|29689584|gb|CB685859.1|CB685859EST: AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAG TGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGC
genomic: AAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAATGTTGATACAAGgtgacttctc ... tcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccattggcatgtaatttcaaaaattttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
tcctgctctacttc CT-rich tract
atgtaatttcaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgtttatttgttctgaaaagtatctttataatgaattgcatcccattggcatgtaatttcaaaaattttatttgtcctgctctacttcatctgcagTGAGCTGGAGCTTAAACCTCAGGGAAGACTTACTGTTACTGTAGTAAAAGCAACTTCATTGAAGAATAAGGAGTTGATTGGTAAATCAGATCCATATGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG