Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgagcaaaaattgctttatctacctgtcaactagatcttgcttacttgagcacttctttttggtcctttcacttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G10060.1 (Glycine max), 3'ss of exon 12
gtgagtgagcaaaaattgctttatctacctgtcaactagatcttgcttacttgagcacttctttttggtcctttcac-ttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
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------------------------------gtgagcattat-tggttcacatgcttaatgttcttggactttctgatgtgtatttttctgattag-----catgtttcttcatgcagAATATTGTAGCTGATATGCGCAAGGTTTTGTCTAAAAATCCTCAAGTAGAGCAGCAAAAATTACACCGAAGGGTTTTTTTGGAGAATGTCAATCCTGAAA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G10050.1 (Glycine max), 3'ss of exon 11
gtgagtgagcaaaaattgctttatctacctgtcaactagatcttgcttacttgagcacttctttttggtcctttcacttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
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------------------gtgagtattcttgtct-ttaaaaattgttcag--ggactattgatggctatctcatcatctgaaaacaaaagtaatctctcctagtttctttatgcagAGTATTATAGCTGATATGCGCAAGGTTTTGGCAAAAAATCCTCAAGTAGAGCAGAAAAAATTGCACAGAAGGGTTTTTCTAGAGAATATTGATCCAGAAA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G10060.1 (Glycine max), 3'ss of exon 11
gtgagtgagcaaaaattgctttatctacctgtcaactag-atcttgcttacttgagcacttctttttggtcctttcac-ttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
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----------------------------gtgagcattattggttcacatgcttaaaaaatgctctaggactttctgatgtgcatttttctgattaa-----catgtttcttcgtgcagAATATTGTAGCTGATATGCGCAAGGTTTTGTCTAAAAATCCTCAAGTAGAGCAGCAAAAATTACACAGAAGGGTCTTTTTGGAGAATGTCAATCCTGAAA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G10050.1 (Glycine max), 3'ss of exon 9
gtgagtgagcaaaaattgctttatctacctgtcaactagatcttgcttacttgagcacttctttttggtcctttcacttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
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------------------gtgagtattcttgtct-ttaaaaattgttcagg-gactactgatagcta-tgtcatcatctgaaaacaaaagtaacatctcctaatttctttatgcagAGTATTATAGCTTATATGCGCAAGGTTTTGGCCAAAAATCCTCAAGTAGAGCAGAAAAAATTGCACATAAGGGTTTTTCTAGAGAATATTGATCCAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttggtcctttcacttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
atttgat putative branch site (score: 5)
tcctctcttttctgct putative PPT
ttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgagcaaaaattgctttatctacctgtcaactagatcttgcttacttgagcacttctttttggtcctttcacttcatttgatgaattgggtcctctcttttctgctcacagAATATTGTAGCTGATATGCGTAAGGTTTTAGCCAAAAATCCTCAAGTAGAGCAGCAAAGGTTGCATAGAAGAGTGTTTCTGGACTATATTGATCCAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG