Sequence
atgc intronic sequence ATGC exonic sequencegttgtgttcacctttatcagttaacatttttattttctttatgttattcttaatttgtacagtcactcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
Basic information
species | Glycine max |
transcript | GLYMA10G36600.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36600.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 11
gttgtgttcacctttatcagttaacatttttattttctttatgttattcttaatttgtacagtcactcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatc------agATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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----------------------caaagttggaatttgattatgtcgtaa--aatatatgcaccc-tacatgttttagcttcatattgacttatattttcatatgtgctccttcaactgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATTGCTTCCATGCTATGTGCTCATGGTCCCGATGTTGAGTGGAGAATATGTA
upper sequence: GLYMA10G36600.2 (Glycine max), 3'ss of exon 10
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 9
gttgtgttcacctttatcagttaacatttttattttctt--tatgttattcttaatttgt-acagtcactcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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-------------gcat-ggttcctctttatatttttctgctattccatctctgatatgcgattggcattctactagaaaatt-----ata-ttgaaa-ctgactcatttcatctcaa-cagATAGAAGTTCCTGCAGCAGAAGCAACCATTGAAGCCACTGCCCAAGGAATTGCCTCAATGCTTTGTGCTCATGGTCCTGAAGTTGAGTGGAGAATTTGCA
upper sequence: GLYMA10G36600.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 11
---------------------------------------------------------------------------------gttgtgttcacctttatcagttaacatttttattttctttatgttattctta-atttgtacagtcactcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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gtattagtgacttgctttcattgtttgtgtccaactaatttattctttgggatgaatgcctccagtttttggagtgcagatcatgcattcatctaccttaacctgttattttacacacacacacacacacacacagatgcatatgcaaacatatgtataacctaacttcgtttgaaaaaaaaaaaatccctctt--gccagATAGAAGTGCCTGCAACTGAAGCAACTATTGAAGCCACTGCCCAAGGGATTGCATCAATGCTTTGTGCACATGGTCCCGAGGTTGAATGGAGAATTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
atctaaa putative branch site (score: 3)
taaaacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtgttcacctttatcagttaacatttttattttctttatgttattcttaatttgtacagtcactcatgtagattctttccgtacacttgagatctaaaacatttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCTATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA