Sequence
atgc intronic sequence ATGC exonic sequencegtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcattgctggtcattttctgatctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G32090.1 (Glycine max), 3'ss of exon 5
gtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcattgctggtcattttctgatctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
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------------------------------------------------------gtagtcttttgtttaatttgctgacaaatgtatggttattttcttttttt-----cttgaaaat---tactgatgttcattgat-------atagGGGCTGGAAGCACTCCATTGCATTATGCTGCTTGTGGAGGCAATTTAAAATGCT-----
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G26560.1 (Glycine max), 3'ss of exon 5
gtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcattgctggtcattttctgatctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
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--------------------------------------------------------------gtaatcttttgtttaatttgctgacaaatgtatggttgttttcctttcttcttgaaaattactgatgtgcattgat-------atagGTGCTGGAAGCACTCCATTGCATTATGCTGCTTGTGGAGGCAATTTAAAATGCT-----
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G29590.2 (Glycine max), 3'ss of exon 4
gtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcat-tgctggtcattttctgat--ctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG---------------
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-----------------------------------------------------------------gtatgtcttgtgtttaatatgctaaatatctctaggttgttttcccccttcaacataatta---atgtgatttgat-------gtagGGGCTGGAAGTACTCCATTGCATTATGCTGCTTGTGGAGGCAATTTAAAATGTTGTCAGGCAAGAATTGCTTTA
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G29590.1 (Glycine max), 3'ss of exon 5
gtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcat-tgctggtcattttctgatc--tcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
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-----------------------------------------------------------------gtatgtcttgtgtttaatatgctaaatatctctaggttgttttcccccttcaacataatta---atgtgatttgat-------gtagGGGCTGGAAGTACTCCATTGCATTATGCTGCTTGTGGAGGCAATTTAAAATGTTGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgatctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
ttctgat putative branch site (score: 3)
catttatttcttct putative PPT
tacaatatatatatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctgtttctttattctgaacagcttttatatatttatttatttattgtatttctttttctttttcttcctttttttcattgctggtcattttctgatctcaactgctacaatatatatatgtatgtacatttatttcttctgtagGAGCAGGAAGCACTCCTTTGCATTATGCTGCTTGTGGGGGAAATTTAAAGTGCTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT