Sequence
atgc intronic sequence ATGC exonic sequence...ctcgacaagaatatggtttaagactaaagttcaaattttggaaatgcgtctttttgatttagagaaaaaaaaattaaattaatgttcatttttcttttagGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGA
Basic information
species | Glycine max |
transcript | GLYMA04G05080.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 3'ss of exon 7
ctcgacaagaatatggtttaagactaaagttcaaattttggaaatgcgtctttttgatttagagaaaaaaaaattaaattaatgttcatttttcttttagGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGA
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---------gtaattcatcatgccgatgattttgattgttaaaacttaacattttcaattgcttgtgtc----ttacgaaatcttttgacactatcatagGAACCCAAGAAGAAGCTGCAGAAGCTTACGATGTAGCAGCAATTAAGTTCCGTGGCACAAATGCTGTGACTAACTTTGATATCACGAGGTACGATGTTGA
upper sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 8
ctcgacaagaatatggtttaagactaaagttcaaattttggaaatgcgtctttttgatttagagaaaaaaaaattaaattaatgttcatttttctttt-agGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGA
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-aaaaaagctaaaccttttaggatctgtagtgttttttcattagggtctagagaccgtacgctcgcatatgcataaagtccatattgaattgaattttcagGTACCCAAGAGGAAGCAGCTGAAGCTTATGATGTTGCTGCTATTAAGTTCCGAGGGGTAAATGCAGTCACCAACTTTGATATTACACGATATGATGTGGAMapped 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|4307200|gb|AI444013.1|AI444013EST: AGGATAGGCAGAGTTGCTGGGAACAAAGACCTTTNACCTTGG-ACGTTCA GCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGNCGATCAAATTTC
genomic: AGGATAGGCAGAGTTGCTGGGAACAAAGACCTTT-ACCTTGGGACGTTCAgtaagtccta ... tttcttttagGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcgtctttttgatttagagaaaaaaaaattaaattaatgttcatttttcttttagGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGA
aattaat putative branch site (score: 3)
tgttcatttttctttt CT-rich tract
tttttgatttagagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcgacaagaatatggtttaagactaaagttcaaattttggaaatgcgtctttttgatttagagaaaaaaaaattaaattaatgttcatttttcttttagGCACCCAAGAGGAAGCAGCAGAAGCATACGATGTAGCGGCGATCAAATTTCGCGGCGCAAATGCAGTCACAAACTTTGACATTTCAAGATACGATGTGGA
- -gacaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa