Sequence
atgc intronic sequence ATGC exonic sequence...aactgtggggatttatttcaaaataaaatttcttttgaacttatcaattttttcttacctctcttgtaatatattttcttttcatgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
Basic information
species | Glycine max |
transcript | GLYMA15G41040.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 4
aactgtggggatttatttcaaaataaaatttcttttgaacttatcaattttttcttacctctcttgtaatatattttcttttcatgcaattgtgac-acagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
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tgctttgggagattgtctggacggagttatttttcttcctgcaccaggcaatgatttccactgggatgctttaatgaatggtc-tgtaattgtctctgcagGAAGTATATGATCAACAAAAAGAACTTATTTTACTTGCGGAGCGAGTTGTACTTGCAACTCTTGGGTTTGATTTGAATGTGCATCATCCATACAAGCCTT
upper sequence: GLYMA15G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 12
aactgtggggatttatttcaaaataaaatttcttt-tgaacttatcaattttttcttacctctcttgtaata--tattttcttttcatgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
| | | | ||| ||| || | | | || | | | | || | | | | || | | |||||||| ||||| || || || ||| | ||||||||||| || | |||||||||| ||| |||||||||||| | |||||| |||||||||| || ||
---tctaaaggcaaggccagggctgctctttttttatgcaactttacatcctgattactgtggcacacaacaataaccgagtctgtttgttttctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT
upper sequence: GLYMA15G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
aactgtggggatttatttcaaaataaaatttcttttgaacttatca-attttttcttacctctcttgtaatatattttctttt--catgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
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---ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgtttcttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttttcttacctctcttgtaatatattttcttttcatgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
ttcttac putative branch site (score: 2)
ttgtaatatattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactgtggggatttatttcaaaataaaatttcttttgaacttatcaattttttcttacctctcttgtaatatattttcttttcatgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC
-actgtgg
- - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgca