Sequence
atgc intronic sequence ATGC exonic sequence...tttccaagctataattctccatgcattatctagacaaccagaatgttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0244g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G27500.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------------------tttccaagctataattctccatgcattatctagacaaccagaatgttcctaagc-tgctctc-tattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
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gtgagttactttcttccatactatatcttattttggttacattagtttttgcttgttatgtcatgcaagtttttattttattctaccataacatttctttcttgtcaatatgcatgttcaagtaattttgatatgtatgtactcatatttttg-tcaacatcatatttgtctgtgatttc-cagAGCATCTAGAAGAATTGGAGCAACTTCTAAAGGGGATAGCTATGATGAAAGAGTTGACTCCACGGACTCAAGACTATTTAGTTTCATTTGGAGAGTGCAT
upper sequence: Vv01s0244g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G07300.1 (Glycine max), 3'ss of exon 4
tttccaagctataattc---tccatgcattatctagacaaccagaatgttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
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--tatatgccttctttcttgtcagtatggttgtttggtaattttcatatgtttgtactcatttttgtggctgactt-catgttgcatgtggaatcatttccagAGCATCTAGAAGAATTGGAGCAACTTCTGAAGGGGATAGCTATGATGAAAGAATTGACTAAAAGGACTCAGGACTATTTAGTCTCCTTTGGAGAATGCAT
upper sequence: Vv01s0244g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G26300.1 (Glycine max), 3'ss of exon 5
tttccaagctataattctcc---atgcattatctagacaaccagaatgttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
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atcatatgccttctttcttctcagtatggttgtttggtaattttcatgtttgtactcatttttgtggct-gacttcg--tgttgcatgtggaatcattttcagAGCATCTAGAAGAATTGGAGCAACTTCTGAAGGGGATAGCTATGATGAAAGAATTGACTAAAAGGACTCAGGACTATTTAGTCTCCTTTGGAGAATGCAT
upper sequence: Vv01s0244g00140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G05380.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------tttccaagctataattctc-----catgcattatctagacaaccagaatgttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT--------------------------------
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gtcacattagtttttgcttgttatgtcatgcaagtttctattttattctaccataacctttctttcttgtcaatatgcatgttcaagtaatttaatatgtttcta--ctcatattagtggcaacatcatattt-gtttgtgtaaatatttccagagcatctagaagaattggagtaacttttaaagGGGATAGCTATGATGAAAGAGTTGACTCCACGGACTCAAGATTATTTAGTTTCATTTGGAGAGTGCATGTCCACTAGGATCTTTGCTGCATATCTTAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
tctatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttccaagctataattctccatgcattatctagacaaccagaatgttcctaagctgctctctattttggctttgccttttgtttgtgagacattttgcagGACATTTAGAAGAATTGGAGCAACTTCTGAAGGGAATAGCCATGATGAAAGAGCTGACATTCCGCACAACAGACTATTTAGTTTCATTTGGAGAGTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- tccaagc
- - - - - - - - - ccatgca
- - - - - - - - - - - - - - - - -acaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgctctc