Sequence
atgc intronic sequence ATGC exonic sequencegtagattcctgctatagcacataatgcagttgtggtctgtcttggttgattatcgttgtagtcagtttaaagcaattcttagatgatgaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 6
gtagattcctgctatagcacataatgcagttgtggtctgtcttggttgattatcgttgtagtcagtttaaagcaattcttagatgatgaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
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------------gttagctttttatttcctt-caacatttactacaggataatt-ttctacctgtttgttaagga-----agatgattaaagttcgatgcagATATTTATTACTGGCTGGTGGCTCTGCCCAGAGTTGTATCTTCGACGCCCATTCCAACATCATGGATCATCTAGACTTGATGCTCTACTGGAAGCAAGAG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 7
------------------------------------------------------------gtagattcctgctatagcacataatgcagttgtggtctgtcttggttgatt-atcgttgtagtcagtttaaagcaattcttagatgat-gaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
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gtttgtttttccagtgtcataacattcaagcccactcatgacatacatacatgcacacctatagatagatagatagatagatag-atagatagatagtagatagatagatagagaataatggttgttttcaagtttctgttcaatgattgagagattcatgcagATATTTATCTGTGGGTGGTGGCTGTGCCCAGAACTGTATCTACGGCGACCTTTCCACACTCATGCTTCGTCAAGGCTTGATAATTTGCTGGAAGCAAAAG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 7
-----------------------------gtagattcctgctatagcacata-atgcagttgtggtctgtc------ttggttgattatcgttgtagtcagtttaaagcaattcttagatgat-gaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
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gtttgtttttccagtgccataacattcaagctcactcatgacata-catacatgcacacctatagatagatagatagtgagcgagagagaataatgattattttcaagtttctgttcaatgattgagagattcatgcagATATTTATCTGTGGGTGGTGGCTGTGCCCAGAACTGTACCTACGGCGACCTTTCCACACTCATGCTTCGTCAAGGCTTGATAATTTGTTGGAAGCAAAAG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagattcctgctatagcacataatgcagttgtggtctgtcttggttgattatcgttgtagtcagtttaaagcaattcttagatgatgaaattt-cgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
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------------------gtctaccacttttcattactgggtgtggagactgatgatgtgttgaatgttatata-ttttcaactgatctgatttgccttatagATTTTCATCTGTGGCTGGTGGGTGTGCCCAGAACTCTATCTTAGGCGTCCTTTTGACCCGCATACTTCATCCAGACTTGATAACTTGTTGGAGAATAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattatcgttgtagtcagtttaaagcaattcttagatgatgaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
ggttgat putative branch site (score: 5)
atgaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattcctgctatagcacataatgcagttgtggtctgtcttggttgattatcgttgtagtcagtttaaagcaattcttagatgatgaaatttcgatgcagATATTTATTTGTGGCTGGTGGGTGTGCCCAGAACTGTATCTGAGGCGTCCATTTCACTCTCATGCTTCTTCTCGGCTTGATGCTTTACTGGAAGCAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA