Sequence
atgc intronic sequence ATGC exonic sequencegttagtacttttttacatagtcgacagattgtgtttttgttataatatccttacgcatgatttttatatataaatagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
Basic information
species | Glycine max |
transcript | GLYMA17G23500.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G23500.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 3'ss of exon 13
gttagtacttttttacatagtcgacagattgtgtttttgttataatatccttacgcatgatttttatatataaatagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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--gtatgttaaactaccttaccaatttattgttcttgtcttgctccgatattgcttgtactgaaaattatcatgtagGTCATGGGGTTTCCTCTGTCCTGTTCATACACCTGATGGAGAGCCTTGTGGTTTACTGAACCATATGACTTCCACATGCC
upper sequence: GLYMA17G23500.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 15
---------gttagtactttttta-catagtcgacagattgtgtttttgttataatatcct--tacgcatgatttttatatataa----------atagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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gtaggttctttcactttttacctgtcaaacactacatgtgctgatgctgtcccaaaattgtagtcttcacatttttcctcttttattgttatcttgtagATCTTGGGGTTTTCTTTGCCCTGTTCACACTCCTGATGGAACACCTTGTGGATTACTGAATCATATGACTCGTACTAGCC
upper sequence: GLYMA17G23500.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 14
gttagtacttttttacatagtcgacagattgtgtttttgttataatatccttacgcatgatttttatatataaatagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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gtatgtatttgtttggaaagtttttaatgtacttagcttgagtattatgatcttgatttatttctct-tacttccagAGCTTGGGGTTTTCTTTGCCCTGTTCACACACCTGATGGGGAGCCTTGTGGATTGCTGAACCATATGGCTTCTACTTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacagattgtgtttttgttataatatccttacgcatgatttttatatataaatagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
tccttac putative branch site (score: 2)
atgatttttatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtacttttttacatagtcgacagattgtgtttttgttataatatccttacgcatgatttttatatataaatagATCTTGGGGTTTTCTTTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA