Sequence
atgc intronic sequence ATGC exonic sequencegcacgatttcctgccagacccttttatgttcaatgtgttatattgacatttaaattcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G39740.1 (Glycine max), 3'ss of exon 3
------------------------------------------------gcacgatttcctgc-cagacccttttatgttcaatgtgttatattgacatttaaa---ttcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
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gttcgaaatcagaacattgacttgaagagacagattgagatctgccaggcatgactttctatgtttgctatttcataattggttt-cgatagtgaagtgtaagttgttcagccaatttacaacta-ccataaacagGAGGAGAACAAACTCTTAGAGAAAAACCATCGTCAAAAGATTTTGGAAGTTGAAAAGCTTAGTCAAACCATTCAAGAACTTGAGGAAGTCATCTTAGCTA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G12490.1 (Glycine max), 3'ss of exon 5
gcacgatttcctgccagacccttttatgttcaatg--tgttatattgacatttaaattcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
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gcatactttttatatttccattttcacatttagtttctgtagtaattacaagtac-ttaagccaatttataactt-ccatgaacagGAAGAGAACAAAATCTTAGAGAAAACACATCGCCAAAAGATTTTGGAAGTTGAAAAACTTAGCCAAACCATCCATGAACTTGAGGAGGTCATCTTATCCA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G01060.1 (Glycine max), 3'ss of exon 2
------------------------------------------------gcacgatttcctgc-cagacccttttatgttcaatgtgttatattgacatttaaa---ttcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
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gttcgaaatcagaacattgacttgaagagacagattgagatctgccaggcatgactttctatgtttgctttttcatatttgattt-ctatagtgaagtgtaagtggttcagccaatttacaacta-ccataaacagGTGGAGAAGAAACTCTTGGAGAAAAACCATCGTCAAAAGATTTTGGAAGTTGAAAAGCTTAGCAAAACCATTCAACAACTTGAGGAAGTCATCTTAGCTA
upper sequence: Vv00s0194g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G01560.1 (Glycine max), 3'ss of exon 7
gcacgatttcctgccagacccttttatgttcaatgtgttatattgacatttaaattcacc--caagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
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-----------------------------------------gttaac-tttaagcgcataagccaatttatagcttccatggacagGAGGAGATCAAAATCTTAGAGAAAACACATCGTCAAAAGATTTTGGAAGTTGAAAAACTTAGCCAAACCATCCATGAACTGGAGGAGATCATCCTATCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgtgttatattgacatttaaattcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
tattgac putative branch site (score: 2)
ttttccattc putative PPT
tgttatattgacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcacgatttcctgccagacccttttatgttcaatgtgttatattgacatttaaattcacccaagtgaaaattttccattcacagGAGGAGAACAAAATCCTTGATAAGACCAACCGTCAAAAGGTTTTAGAGGTTGAAAAGCTTAGCCAAACCATTCAGGAACTTGAGGAGGCCATTCTAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG