Sequence
atgc intronic sequence ATGC exonic sequencegtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g21914.1 (Oryza sativa), 3'ss of exon 2
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
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--------------------gtaagaatcttgtgcttcttctgctcacatgtaaatg---ccacccggctcgcttatacttggcttctttttaaaattttgtagATATTAGGGAGCTCATATCATTGGATGATGTCATGGAGGAACTTGGGATGGGACCAAATGGCGGGCTTATCTATTGCATGGA
upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g50620.2 (Oryza sativa), 3'ss of exon 2
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttct--ttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
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--------------------gtaaggatcttctcgtgcttgtgtaaatattga--tcggctcgcttatacttggcttctgttaaat-----------tttttgtagATATTAGGGAGCTCATATCATTGGATGATGTCATGGAGGAACTTGGGATGGGACCAAATGGCGGGCTTATCTATTGCATGGA
upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G131324_T01 (Zea mays), 3'ss of exon 3
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
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---------gtaatttttctgcttaattgttacaatgtaaagctcttgtccacagtaaagt-attgctctgacttcttatt------gccttgcattttggtagATATCAGAGAGCTGATTTCATTGGATGATGTTATGGAGGAGATTGGGTTGGGGCCAAATGGCGGTCTCATCTACTGCATGGA
upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G39880.1 (Glycine max), 3'ss of exon 3
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
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gtaagtagaatttgttattatgttg--ttatttctttcacgggtttggagttttgtgatttgcggagcttgacttgactttcttgggttgacatg--cttgcagATATAAGGGAACTCATTTCCCTAGATGATGTTATGGAGGAACTTGGATTGGGTCCTAATGGTGGTCTTGTCTACTGCATGGA
upper sequence: Vv00s0174g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S234_26V6.3 (Physcomitrella patens), 3'ss of exon 3
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
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--tcgcataatcgagtatggattgaaaatttgttatttttcgatcgaagagttttctaccatggtcatctgaatttcgagt--ttggatgctcattgcatacagATATTCGGGAGCTAATATCTTTGGAAGATGTAATGGAGGAACTTAAACTTGGGCCAAATGGTGGTCTTGTGTACTGCATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
ttgttttctt CT-rich tract
tattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtagaattctttgcctgggaggtttttttttttttttcatttggggtggggtgggtttgtttctttagtttcagagcaatgaagtattgttttcttgcagATATTAGGGAGCTTGTTTCCTTGGATGATGTTATGGAGGAGCTTGGACTGGGGCCAAATGGTGGCCTTATGTACTGCATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA