Sequence
atgc intronic sequence ATGC exonic sequence...ggtgattcatctttatcacaaatttatacaattgatctttcttgctttagggtccagactctgcttctctgattaactctcaaattcttgttatttgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os04g52200.1 (Oryza sativa), 3'ss of exon 13
ggtgattcatctttatcacaaatttat-acaattgatctttcttgctttagggtccagactctgcttctctgatta-actctcaaattcttgt------tatttgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
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-------tagctgcttt-caggttgatcaatgcttatgttttcaggttgagaacacaaggaattttctcttgtttgtgcttacgtgtatcgatggaacataatttcagATCAAAAGCCTCAGACTGCCTATGAAGTTTGGGAGTCACAGGGGTTTCGCATTTGTTGAATTCGTCACAAAGCAAGAGGCGCAGAACGCTCTCCAAGCAC
upper sequence: Vv01s0011g01060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G031529_T01 (Zea mays), 3'ss of exon 12
--------ggtgattcatctttatcacaaatttatacaattgatctttcttgctttagggtccagactctgcttctctgattaactctcaaattcttgttatttgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
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aaagaacggagggattacattagtttcaagttgata--agtaattttact--ctttccccccaggaatcttatgatttgaatt-cattaaaatt---gaaatttgtagATCAAAAGCCTCAGGTTGCCTATGAAGTTTGGTAGCCACAGAGGTTTTGCGTTTGTGGAATACGTCACAAAACAAGAGGCCCAGAACGCTCTACAAGCCC
upper sequence: Vv01s0011g01060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G09970.1 (Glycine max), 3'ss of exon 14
ggtgattcatctttatcacaaatttatacaattgatct--ttcttgctttagggtccagact-ctgctt--ctctgattaactctcaaattcttgttatt-tgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
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-----taaatctgt-ttattatttcagccaaaacatgtagatctagttttctggtgcattttactgctttgttttcactaatgtttgattgctctaaactgtgcagATTAAGAGCTTAAGGTTGCCAATGAAGTTTGGAAACCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCACAAAATGCCCTCAAAGCAC
upper sequence: Vv01s0011g01060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA14G24510.1 (Glycine max), 3'ss of exon 11
ggtgattcatctttatcacaaatttatacaattgatctttcttgctttagggtccagactctgcttctctgattaactctcaaattcttgttatt-tgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
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ttaaacctgtttttatttcag-tcaaaacatgtggattcagttttctggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagggtccagactctgcttctctgattaactctcaaattcttgttatttgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
gattaac putative branch site (score: 2)
ttcttgtt putative PPT
aaattcttgttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgattcatctttatcacaaatttatacaattgatctttcttgctttagggtccagactctgcttctctgattaactctcaaattcttgttatttgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - cacaaat
- - - - - - - - - - - - - - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcaa