Sequence
atgc intronic sequence ATGC exonic sequence...tttacatttttaagcactatttaatcctttattttcatttcattgtttttgttgtcttgtttggtcatgcatttataatttcaactgtattggaaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
Basic information
species | Glycine max |
transcript | GLYMA06G00520.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G00520.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g42050.1 (Oryza sativa), 3'ss of exon 7
tttacatttttaagcactatttaatcctttattttcatttcattgtttttgttgtcttgtttggtcatgcatt--tataatttcaactgtattggaaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
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-ttagatacttgt-ctcaaattcgctccatgcaggaacaaaaataaatgctccatatctttacgtaatttattcttctgatgtgtgatctgctcatctacagGTCTTGCTGATCATGGAAATTACCATGAGTTCTGCCGCCTTCTTGGACGTTTCAAAGTGAATTTCCAG
upper sequence: GLYMA06G00520.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G06120.3 (Arabidopsis thaliana), 3'ss of exon 8
tttacatttttaagcactatttaatcctttatttt-catttcattgtttt-tgttgtcttgtttggtcatgcatttataatttcaactgtattgg--aaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
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---atttgttaatattttgttctgttgcaaactttacacctcattgaactataacatctcact-gatcttggttcgtcaacacaaattacttttgttggatcagGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAATTATCAG
upper sequence: GLYMA06G00520.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0067g01920.t01 (Vitis vinifera), 3'ss of exon 9
tttacatttttaagcactatttaatcctttattttcattt-cattgtttttgttgtcttgtttggtc--atgcattta-taatttcaactgtattggaaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
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-ttatat---gaagcatcataaaatgcttttacatcattagcagaagtttatttaaatcaaatggcttaaattattgagttgctatatttggactgggaatcagGTCTTGTTGATCATGATAATTACCATGAATTTTGTCGTCTCCTTGGACGTTTCAGAGTAAATTATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgttgtcttgtttggtcatgcatttataatttcaactgtattggaaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
atttataatttcaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttacatttttaagcactatttaatcctttattttcatttcattgtttttgttgtcttgtttggtcatgcatttataatttcaactgtattggaaagcagGTCTTGCAGATCATGATAATTACCATGAGTTTTGTCGTCTTCTTGGTCGGTTCAGAGTGAATTATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caactgt