Sequence
atgc intronic sequence ATGC exonic sequence...aactgctgatgcttcaacttcatttcactatagcaaactgattgatttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G03230.1 (Glycine max), 3'ss of exon 1
-----aactgctgatgcttcaacttcatttcactatagcaaactgattgatttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
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tattgcatactttttggttttccctctttttcctttcaaaattttaatcatttatgattgga---aaaacttgt--ttagtttctgtttactgacatatctccagGATTATTACATGAAATGCTGAGGTCATCAAAAACAGGGGATTCCAAATCAACTTGGAAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G03970.1 (Glycine max), 3'ss of exon 2
aactgctgatgcttcaac--ttcatttcactatagcaaac--tgattgatttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
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----tttaacattttaatagtaaattgcttaaaagttaaccatgattaattgctttctgatctgatcatctcgtttaatttctctgttgtgaaattttctgtagGATTATTACATGAAATGCTTAGGTCAGCGAAAACAGGGGATTCAAAATCTACATGGAAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G14450.1 (Glycine max), 3'ss of exon 1
-aac-tgctgatgcttcaacttcatttcactatagcaa--actgattgatttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
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taacattttaatagt--aatttgcttggaagttaaccatgatcaattgctttctgatctgatcatatctcgtttaatttctatgttgtgaaattttctg--cagGATTATTACATGAAATGCTTAGGTCAGCGAAAACAGGAGATTCAAAATCTACATGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
gcctaat putative branch site (score: 3)
taatatttttcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactgctgatgcttcaacttcatttcactatagcaaactgattgatttttgacagtgcctaatatttttcattattttggatttggatgtatatggtcagGCTTATTGCATGAAATGCTTCGATCAGCAAAAACAGGGGATTCAAAATCAACTTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
-actgctg
- - - - - - - caacttc
- - - - - - - - - - - - - - - - - aaactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgt