Sequence
atgc intronic sequence ATGC exonic sequencegtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G04230.1 (Glycine max), 3'ss of exon 12
gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
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-----------------------------gtgatgtataaatttagcaat-aagtttccaatccatatggacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattg-cagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 11
gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
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--------gtgatgtgtaaatttagcaatc---agtttctaatccatatggacaaaaatataaaaggaaataaa----gctatttacattttcatttt---------tattttgtatattg-cagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G36130.1 (Glycine max), 3'ss of exon 7
gtgagggagaattgtttttact---tcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
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gtgataaataa--gtttcaaatcaatattaattgttatggactaaacaagacgaaaaaaaaaagaaagcagtttacatcctcttattc---cttttgttatgatg--------------------cagGATGGGAAACTTTTACCAGATGGCCCTGTTGTTATATCCCCTGATGGACTCTTTCCTTCTCTATATCGAGAAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S39_351V6.1 (Physcomitrella patens), 3'ss of exon 6
gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttag---------gaaccctgaatgttttatttattttattat-------------ttattcctttctttt--aaagaatatca----------tttttcat-----atttt-------cagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
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gttcgtgagttcattactgaatctttattattaaatgaaaacattcaagttagcctaattttaaactgataagaactttcttgttttagtatatggcgaaacatgttaataccttcttgccggaaagatgtcaagagtaaagtttttccatcacaaattctatcattgcagGACGGTGAAGCACTACCAGATGGACCAGTTGTCATTTCTCCTGATGGACTCTTTCCCTCCCTCTATCGCGAAG
upper sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S2_272V6.2 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------------gtgagggagaattgtttttacttcttgatttgaagtga----gaaatcaaaatttaggaaccctgaatgttt-tatttattt--tattatttattcctttcttttaaaga---atatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
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gtgcgctatttgttttaaaataataattcaaaacagccgactttagactgattctgaagaaattttcttgtt--ttcatgtagagtgatttggaggtcaactttccaccttgacctatgtctatagctacttgttgtaaagaggtcttgaatattataatttcatcacaatttctgttattgcagGATGGTGAAGCACTTCCAGATGGACCAGTTGTTATTTCTCCTGATGGACTCTTTCCCTCTCTTTATCGCGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
tttttcatattttc CT-rich tract
tttattatttattcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA