Sequence
atgc intronic sequence ATGC exonic sequencegtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G03770.1 (Glycine max), 3'ss of exon 2
--------gtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagat--atagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
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gagaagcttaattcatttattgagaagataaagtattttgttctccaaaaata----tacttattaagaaatttagtcgaacatgaccctgataactttggcagATCTTGGCTGGCCTTTTGGATCAACATTCTATAGCAGAAAATCCTCAAGCTCTAAAAATGGTGACATGGATGGTTGATTACTTTTACAACCGAGTGCAGA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 2
gtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgt-tatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
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-----------------gtacaa----tcaaaaagtggatttttattacgcaagtgcttttgaccttatgttg-tggaatttcaactattcacagATCTTGGCTGGCCTCTTGGATCAACATACTTTTGCTGGAAACCCTCAAGCTCTAAAAATGGTAACATGGATGGTTGATTACTTCTACAACAGAGTGCAGA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 2
gtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
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gtacaatcaaa----aagtggattttgattacgcaagtgctttcgaccttatgttgtggaa---tttcaactattcagctttg-------acagATCTTGGCTGGCCTCTTGGATCAACATACTTTTGCTGGAAACCCTCAAGCTCTAAAAATGGTAACATGGATGGTTGATTACTTCTACAACAGAGTGCAGA
upper sequence: Vv06s0004g01650.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 3
gtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
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-----------gtacaatcaaaagtggatttt-gataatacaagtgcttttgaccttaatattgtgggatttcaactaattagttatgaca--gATCTTGGCCGGCCTCTTGGACCAACATACTTTTGCTGGAAACCCTCAAGCTCTAAAAATGGTAACATGGATGGTTGATTACTTCTACAACAGAGTCCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
tgataac putative branch site (score: 2)
aatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccaaaagactacaagtataagtgcttttaaggtatgataacaatgttatgtgttgataacctttggatggtcttgtgttgttgagatatagATATTGGCAGGGCTTTTGGATCAATATACGTTGGGTGGTAATGCCCAAGCTTTGAAAATGGTGACATGGATGGTTGAGTACTTCTACAACCGTGTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA