Sequence
atgc intronic sequence ATGC exonic sequencegtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgcagatctctctctactttgttattatgttagagtctttctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G406553_T04 (Zea mays), 3'ss of exon 1
gtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgcagatctctctctactttgtta-ttatgttagagtctttctttgtgtgtgtgtgtgacttggctg-gccttgacgagttat--gtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
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------------------------------------------------------------------tgtctgaagtggtacattgatgtaaatgatgttagttatcgggggagattgggctgc-taaatgtgccacattgcgatgccttgacttgcgattggtgtagAGGAGTTTGTGGCGCATGCGTCCAATGTGAACTGCCTCAAGATTGGGAGGAAGACCTCACGGGTTCTTGTCACCGGAGGAGAGGATCATAAGGTCAATCT
upper sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgca--gatctctctctactttgttattatgttagagtctttctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
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---------------------------------------------------------------ttaaatttaagactattatgaatgaagtcaagtttgagttttgactagagtctctatctg-gtacctat-tgcttagccttgactttctgtgtggtttaaagAGGAATTTGTGGCACATTCTGCTGCTGTCAATTGTCTTAAGATCGGAAGGAAGTCTTCTAGGGTTCTGGTAACAGGTGGTGAAGATCACAAGGTCAATCT
upper sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G08390.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgcagatctctctctactttgttattatgttagagtctt-tctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
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--------------------------------------------------------------tgtgcttctaaatttataaacttttagtcaatttcttctttgactagagtctcatcccagagtattgcttagccttgacttatgt-gatacattttata-agAGGAATTTGTGGCACATTCTGCTGCTGTTAATTGTCTTAAGATTGGGAGGAAGTCCTCCAGGGTTCTCGTTACAGGCGGAGAAGATCACAAGGTTAATCT
upper sequence: GLYMA19G00890.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 3'ss of exon 1
gtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgcagatctctctctactttgttattatgttagagtctttctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
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--------------------------------------------------tctgcagatcccttctctacccttgcttcacagcatttgttattttg-----aattttgaatttttacttct-----cgagaaaattccttgacc---acggtttttgaacagAGGAATTTGTAGCACACTCTTCCAGTGTAAACTGTCTCAAGATTGGGAGGAAGTCATCCAGGGTTCTTGTCACCGGTGGAGAAGATCACAAGGTGAATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtctttctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
ggccttgac putative branch site
tttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccttcatctcttgtctgtctgtgctttacattttgtttgatctatctatgcactcgcccttcattttctatctgcagatctctctctactttgttattatgttagagtctttctttgtgtgtgtgtgtgacttggctggccttgacgagttatgtccagAGGAATTTGTAGCACATGCTTCTACTGTCAATTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
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