Sequence
atgc intronic sequence ATGC exonic sequencegtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatcatttttatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 6
gtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatcatttttatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
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---------------------gtgagattgactgcccgtttttcagagtgtgcctgtctttattcctcattata-tcatggcactatagatttgactg--aactgctac-------ctctagGTGTGCTACTCCTGGTGGGTGCTCTCAAGCTTGATAATGATTGATAGAGTGCACTGGATTGACAAGGACAAACTTGCAAAATTCATACTAAATTGCCAG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 7
gtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatcatttttatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
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--gtgaggtttactctgtcaca-------agtcatgcgtggtctgcattcttcagtacatg--tttccacgagc----ccgctatggattta-----attgaaccctaccaaatt-ctcaagGTTTGCTACTCGTGGTGGGTGCTATCGAGCCTAGTCATGATTGACAGAGTGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 7
gtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatc-atttttatagttt--tcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
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--------------------------------------------------gtgagtaaatcttttcaaatttaggtttagtgctgtagattgtcctttctcttactaggttttagatcttctcagGTCTGCTACTCATGGTGGGTTCTTTCTAGCCTGATCATGATTGATAGGGTACATTGGATTAGTAAGGAGAAGCTTATAAAGTTCATCTTAGACTGCCAG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 7
gtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatcatttt---tatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
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--------------------------------------------------gtgagtgaatcttttcaaatttagattaagttccgtagattgtcctttctcttactgggttttagatcttctcagGTCTGCTACTCATGGTGGGTTCTTTCTAGCCTGATCATGATTGATAGGGTTCATTGGATCAGTAAGGAGAAGCTTATAAAGTTCATCTTAGACTGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataaaaatcatttttatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
ttcttac putative branch site (score: 2)
tcacttc putative PPT
aaatcatttttatagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgattctttttttcttccatatatttatttatttgttatttattttagagaagccataatttcctataaaaatcatttttatagttttcttactataagttcctattgtatcacttcagGTCTGTTACTCATGGTGGGTGCTATCAAGCCTGATCATGATTGACAGAGCTCATTGGATTGACAAGGAAAAGCTCATTAAATTCATCTTAGATTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA