Sequence
atgc intronic sequence ATGC exonic sequencegttgtatctcattattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagtagatttaatctaggatttttctgttctaagcagtccatttgaaagatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G22210.1 (Glycine max), 3'ss of exon 5
-------gttgtatctc-attattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagtagatttaatctaggatttttctgttctaagcagtcc-atttgaaa-gatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
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gtttgtatttgtttttctgcaatcttttatctacagtttaa-gttgtaagtgataaaaatgtatgattagct-atctgtgttttagatctcttttaa---tgtactagattacatattctgatttgatttgatgttaatgcaacacagGAGAAGGCTGGAAAAGCGTATATATATCCCTCTTCCAAATTTTGAGAGTCGTAAAGAACTGATCCGGATCAATTTGAAGACTGTTGAG
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G03820.1 (Glycine max), 3'ss of exon 5
-------gttgtatc-tcattattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagtagatttaatctaggatttttctgttctaagcagtcc-atttgaaa-gatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
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gtttttatttgttttgttgctatactttatctacagttta-tgttgttagtgataaaaatgtatgattagtt-atctgtgttttagatctcttttaatata---ctagattacatattctgatttgatttgatgttaatgcaacacagGAGAAGGCTGGAAAAGCGTATATATATCCCTCTTCCAAATTTTGAGAGTCGTAAAGAGCTGATCCGAATCAATTTGAAGACTGTTGAG
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G43840.1 (Glycine max), 3'ss of exon 5
gttgtatctcattattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagt-agatttaatctaggatttttctgttctaagcagtccatttgaaagatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
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-----gtctagctatcttcttttttgcatcgatccttttcttacttttgtgaatgttgagttatatatttttgtctgaagtcctacattgtgctagtcaccactagttgattcaatttgatg--tttaatgcaaagCAGGAGAAGGTTGGAAAAGCGTATATACATTCCTCTTCCAAATTTTGAGAGTCGAAAAGAGCTGATCCGTATCAATTTGAGGACT------
upper sequence: Vv09s0002g05260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G80350.1 (Arabidopsis thaliana), 3'ss of exon 5
gttgtatctcattattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagtagatttaatctaggatttttctgttctaagcagtccatttgaaagatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
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-------------------------------------------------gtttaaatattctttgagttaatgc-cgtctttagacttgctctaatataatg-aaattgctgattctggagctcacgttg--gtgcagGAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctaggatttttctgttctaagcagtccatttgaaagatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
atttaat putative branch site (score: 4)
tttttat putative PPT
atttgaaagattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtatctcattattttttttttaaaattaaatatttttttttttgaatttttatcattctttgaattgttaagtagatttaatctaggatttttctgttctaagcagtccatttgaaagatttttatgtaatgcagGAGGAGGCTGGAAAAGCGTATATACATCCCTCTCCCAAATTTTGAGAGTCGCAAGGAGCTTATACGGATCAATTTGAAAACTGTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG