Sequence
atgc intronic sequence ATGC exonic sequencegtgagttatatttgcaattgatctatatgattgctccattcagaagttttagaattgcatcgtctcatgtttccttctctttgttttatgtataattttgccactgttattggagaatctctctcagtctctctatccctctctcattatttatttagttattttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G41000.1 (Glycine max), 3'ss of exon 2
gtgagttatatttgcaattgatctatatgattgctccattcagaagttttagaattgcatcgtctcatgtttccttctctttgttttatgtataattttgccactgttattggagaatctctctcagtctctctatccctctctcattatttatttagttat---tttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
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----------------------------------------------------------------------------------gtgagtttaataatctgatcatctagattttaaa----tttgtggttttggtgtttctctttgaa-attgatatcattataaatatctgatgcagGGTGTTGATCCTAGTATCAGAGCTGAAGTTTGGCCATTCCTACTTGGAGT
upper sequence: Vv16s0098g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G13850.1 (Glycine max), 3'ss of exon 2
gtgagttatatttgcaattgatctatatgattgctccattcagaagttttagaattgcatcgtctcatgtttccttctctttgttttatgtataattttgccactgttattggagaatctctctcagtctctctatccctctctcattatttatttagttattttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
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----------------------------------------------------------------------------------gtgagtttaataatctgatcatctagattttaaattttttgtt--tcggtgtttctctttgaaattgatttcattataaatatctgatgcagGGTGTTGATCCTAGTATCAGAGCTGAAGTTTGGCCATTCCTACTTGGAGT
upper sequence: Vv16s0098g01220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G25810.1 (Glycine max), 3'ss of exon 1
gtgagttatatttgcaattgatctatatgattgctccattcagaagttttagaattgcatcgtctcatgtttccttctctttgttttatgtataa-ttttgccactgttattggagaatctctctcagtctctctatccctctctcattatttatttagttattttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
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-------------------------------------------------------------------------gaaaaatgtatttaatgtaaaccttcttttatttacactttaaaattgtattttgtgtgctt--ctttttagaattaattacattatcaatttctgatgcagGGTGTTGATCCTAGTATTAGGGCTGAGGTTTGGCCGTTCCTGCTTGGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctctcagtctctctatccctctctcattatttatttagttattttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
ttttaat putative branch site (score: 3)
ttatttttt CT-rich tract
tctctcattatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttatatttgcaattgatctatatgattgctccattcagaagttttagaattgcatcgtctcatgtttccttctctttgttttatgtataattttgccactgttattggagaatctctctcagtctctctatccctctctcattatttatttagttattttttaatgaagGGTGTTGATCCAAGTATCAGAGCAGAAGTTTGGCCGTTCCTGCTAGGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT