Sequence
atgc intronic sequence ATGC exonic sequencegtaattcacttcctcatgtttacctttttatagtaagacatgctagactatataggtgcttatcatgttagtatttcaactactgtgtttgagtattcctttattaactgagtatcttgaagttcctaagttatattcttaatgaattattatatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
Basic information
species | Glycine max |
transcript | GLYMA08G06880.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G06880.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 11
gtaattcacttcctcatgtttacctttttatagtaagacatgctagactatataggtgcttatcatgttagtatttcaactactgtgtttgagtattcctttattaactgagtatcttgaagttcctaa--gttatattcttaatgaattattatatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
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----------------------------------------------------------------------------taa--acagtgctggtcaatgggaacggagggagtatatattgatttttctcatcctgatatgcatatctaattaatttcttttgat--tgttgtaacttg-----tagGCCCCAGTAAACTATGTATGCCTTCATTGTGTAAAACCAAGTTTGCGGCCATTATCAATGGCTATGTCAACTGTTGCAATCCATATATTTGGTGATGTGC
upper sequence: GLYMA08G06880.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G64500.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaattcacttcctcatgtttacctttttatagtaagacatgctagactatataggtgcttatcatgttagtatttcaactactgtgtttgagtattcctttattaactgagtatcttgaagttcctaagttatattcttaatgaattatta---tatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
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--------------------------------------------------------------------------------------------------------------gtaatctcgacttccaccattcatatacttcatgttttgcaaatccacctcttctgatttatttcatgatgtttagGGTCCTGTGAATTTCATAGTTCTCCATTGTGTCAAACCAAGTCTGAGACCACTTGCAATGGCGATGTCTACTGTCTCTATCCATATCTTTGGAGATGTAC
upper sequence: GLYMA08G06880.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 10
gtaattcacttcctcatgtttacctttttatagtaagacatgctagactatataggtgcttatcatgttagtatttcaactactgtgtttgagtattcctttattaactgagtatcttgaagttcctaagttatattcttaatgaattattatatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
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---------------------------------------------------------------------agttgctta--tgctgtactgatgttattatagcacaaataagtatct------gcataggtca-gtattca--ggatattcac---ttagacattcaatgtttgccatcgcagGGACCTGTCAATTATGTATGCCTCCATTGTGTGAAACCAAGTTTGCGTCCGCTATCAATGGCTATGTCTACTGTTGCAATTCACATTTTTGGTGATGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttatattcttaatgaattattatatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
tcttaat putative branch site (score: 3)
ttttcttttt putative PPT
aattattatatttcag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcacttcctcatgtttacctttttatagtaagacatgctagactatataggtgcttatcatgttagtatttcaactactgtgtttgagtattcctttattaactgagtatcttgaagttcctaagttatattcttaatgaattattatatttcagtgatcttataattttctttttagGGTCCTGTGAATTATGTATGTCTCCATTGTGTTAAACCAAGTTTGAGGCCGCTGTCTATGGCTATGTCTACTGTTGCTATTCATATCTTTGGAGATGTGC
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