Sequence
atgc intronic sequence ATGC exonic sequence...tcaagatagaagacatctataatgttttcttttcataaattcttgaattttacttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
Basic information
species | Glycine max |
transcript | GLYMA12G19010.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G19010.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 4
-tcaagatagaagacat-ctataatgttttcttttcataaattc--ttgaattttacttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
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gtaatgctcaagaacacaccaggatgattggcatggaagatatcattttgaccttttttctcttactatttttttatataaactaactt----cttttctgcagAGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTTTGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGT
upper sequence: GLYMA12G19010.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 5
tcaagatagaagacatctataatgttttcttttcataaatt-cttgaattttacttataaaaacagaggttaaacctggttc-ttgcaaaatgtt-cttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
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---tgataaatagggcttctcatgttttatgtcattctcctgcatgtgtgtcatggacttcgtatgagacctcacatggttaattacacaatatcacttgtagGATCTGTGCTGGGTGCAACTGCGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGG
upper sequence: GLYMA12G19010.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ15933 (Selaginella moellendorffii), 3'ss of exon 3
tcaagatagaagacatctataatgttttcttttcataaattcttgaattttacttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
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------------------gtagc-tttctgtgttacaaatctttgcgagggtctcttcgtc-taaatgcctcgcagGTTTTCTGGA----GCTCATGTG-----TGCGCACGATGTAAAAAGACCATCGGACCTGGACGTTTTCTAAGCTGCATGGGAGGTTTGTGGCATCCGGAATGCTTTAGA---------------
upper sequence: GLYMA12G19010.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ33296 (Selaginella moellendorffii), 3'ss of exon 3
tcaagatagaagacatctataatgttttcttttcataaattcttgaattttac-ttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagA----ATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
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----------------------------------gtagctttctgtgttacaaatcgttgcgagagtctcttcgtctaaatgcctcgcagGTTTTCTGGAGCTCACGTGTGCGCACGATGTAAAAAGACCATCGGACCTGGACGTTTTCTAAGCTGCATGGGAGGTTTGTGGCATCCGGAATGCTTTAGA--------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttacttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
tgttctt CT-rich tract
tacttataaaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaagatagaagacatctataatgttttcttttcataaattcttgaattttacttataaaaacagaggttaaacctggttcttgcaaaatgttcttgcagAATCTGTGCTGGCTGTAATGCTGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgcaa