Sequence
atgc intronic sequence ATGC exonic sequencegtatgcatttgcctttattatttttatttttatttttattttaaggctcaatttcgtcagaatgatattttatcttgttatgggatacactcatttattttatcatatttattcttttattttgggttcaatcatgtcatattaagcttttgtccccttaaagatataaataccttggcattatagGATGAGATTGTTCAGAACTGCTATTGGGACTCAGGGCGACCATTTGATTTGAAACGAGAACCTGATGCCATTCCTCCTGAAGTGACACTTCAATCTATAA
Basic information
species | Glycine max |
transcript | GLYMA11G06550.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06550.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G15680.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatgcatttgcctttattatttttatttttatttttattttaaggctcaatttcgtcagaatgatattttatcttgttatgggatacactcatttattttatcatatttattcttttattttgggttcaatcatgtcatattaagcttttgtccccttaaagatataaataccttggcattatagGATGAGATTGTTCAGAACTGCTATTGGGACTCAGGGCGACCATTTGATTTGAAACGAGAACCTGATGCCATTCCTCCTGAAGTGACACTTCAATCTATAA
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----------------------------------------------gtaagtagcttctgtgt-agatctcaccatttcagaggctt--tttagccttttggt--tgattatggtttaaaaccgtctggctttatagaaaattaagattt-gtatcctt-----tat---ttctttcacataatagGATGATATTGTTCAAAGTTGCTATTGGGATTCTGCCCGTCCTTTTGATTTAAGACGAGATTCCGATGCCATTCCTTCTGATGTGACTCTTCAATCCATTA
upper sequence: GLYMA11G06550.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0083g00750.t01 (Vitis vinifera), 3'ss of exon 12
gtatgcatttgcctttattatttttatttttatttttattttaaggctcaatttcgtcagaatgatattttatcttgttatgggatac-actcatttattttatcatatttattcttttattttgggttcaatc-atgtcatatt---aagcttttgtccccttaaagatataaataccttggcattatagGATGAGATTGTTCAGAACTGCTATTGGGACTCAGGGCGACCATTTGATTTGAAACGAGAACCTGATGCCATTCCTCCTGAAGTGACACTTCAATCTATAA
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---------------------------------------------------------------------gtgagttgtggtatattactaaatgttttcctgaccaaactttttcattccttcaagtttcaatttgtgaaaaatgtgaatgcttttaattgtttcttaaactatgaactttgagtttacagGATGATATTGTTCAGAGTTGCTATTGGGATTCTGGGCGTCCATTTGATATGAGACGGGAATCTGATGCTATCCCTCCTGATGCAACATTTCAATCTATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgtcatattaagcttttgtccccttaaagatataaataccttggcattatagGATGAGATTGTTCAGAACTGCTATTGGGACTCAGGGCGACCATTTGATTTGAAACGAGAACCTGATGCCATTCCTCCTGAAGTGACACTTCAATCTATAA
ttaaagatataaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcatttgcctttattatttttatttttatttttattttaaggctcaatttcgtcagaatgatattttatcttgttatgggatacactcatttattttatcatatttattcttttattttgggttcaatcatgtcatattaagcttttgtccccttaaagatataaataccttggcattatagGATGAGATTGTTCAGAACTGCTATTGGGACTCAGGGCGACCATTTGATTTGAAACGAGAACCTGATGCCATTCCTCCTGAAGTGACACTTCAATCTATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG