Sequence
atgc intronic sequence ATGC exonic sequencegttagtacttttatacataatcggtagattgtgattttgttataatatacttacctatgtttttttatatatataaatagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
Basic information
species | Glycine max |
transcript | GLYMA13G26190.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 3'ss of exon 13
gttagtactttta--tacataatcggtagattgtgattttgttataatatacttacctatgtttttttatatatataaatagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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----gtatgttaaactaccttaccaatttattgttcttgtcttgctccgatattgcttgtactgaaaattat---catgtagGTCATGGGGTTTCCTCTGTCCTGTTCATACACCTGATGGAGAGCCTTGTGGTTTACTGAACCATATGACTTCCACATGCC
upper sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 15
-------------gttagtactt-ttatacataatcggt----agattgtgattttgttataatatacttacctatgtttttttatatatataa-atagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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gtaggttctttcactttttacctgtcaaacactacatgtgctgatgctgtcccaaaattgtagtcttcacatttttcctcttttattgttatcttgtagATCTTGGGGTTTTCTTTGCCCTGTTCACACTCCTGATGGAACACCTTGTGGATTACTGAATCATATGACTCGTACTAGCC
upper sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 14
gttagtacttttatacataatcggtagattgtgattttgttataatatacttacctatgtttttttatatatataaatagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
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gtatgtatttgtttggaaagtttttaa--tgt-acttagcttgagtattatgatcttgatttatttctct-tacttccagAGCTTGGGGTTTTCTTTGCCCTGTTCACACACCTGATGGGGAGCCTTGTGGATTGCTGAACCATATGGCTTCTACTTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agattgtgattttgttataatatacttacctatgtttttttatatatataaatagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
tacttac putative branch site (score: 1)
ttataatatacttacc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtacttttatacataatcggtagattgtgattttgttataatatacttacctatgtttttttatatatataaatagATCTTGGGGTTTTCTCTGCCCTGTGCACACACCTGATGGAGAGCCCTGTGGATTGTTGAATCATATGACTTGCACTAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA