Sequence
atgc intronic sequence ATGC exonic sequence...tcatgtggtctaatgaatattttcattaggatagtatataactatatatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G36370.1 (Glycine max), 3'ss of exon 1
-tcatgtggtc-taatgaatattttcattaggatag-tatataactatatatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
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attgcattatcatactctctaattttgtaactttggctacatgattaactataaatagtaaagtttcatatatatatgaatctttcttcttcta---ttgcagGGTTTCAAGAAGGTAGTTGCTGACAGGTGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGCTAAGCACCTTTTGTGTGAAATCCACAGGAGAAAAGCAC
upper sequence: Vv06s0009g02730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G04070.1 (Glycine max), 3'ss of exon 1
tcatgtggtctaatgaatattttcattaggatagtatataactatatatctatagtataaga---atgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
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--ttatgattacctagctagctacacaagcttcatgattaact-catgtttgtaaaacagcatacacacatatatatacctttccttttcttttctttttcagGGTTTCAAGAAGGTAGCTGCTGATAGATGGGAGTTTGCAAATGAATACTTCAGAAAAGGAGCTAAGCACCTTTTATGTGAAATCCACAGGAGGAAAACCC
upper sequence: Vv06s0009g02730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G08250.1 (Glycine max), 3'ss of exon 1
--tcatgtggtctaatgaatattttcattaggatagta--tataactatatatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
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ctaaatgtgattgcattataatattctctgatgttgtaactttagcttcatgatta-actatgaata-gtaaagtttcatatgaatctttcttctc--tttcagGGTTTCAAGAAGGTAGTTGCTGACAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGCTAAGCACCTTTTATGTGAAATTCACAGGAGAAAAGCAC
upper sequence: Vv06s0009g02730.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G44670.1 (Glycine max), 3'ss of exon 1
--tcatgtggtctaatgaatattttcattaggata-gtatataactatatatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
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acctagctagctacacaagcttcatgattgactcatgtttgtaaaacagcatacaca-cacacacatatatatatacctttccttttctttttt--ttctcagGGATTCAAGAAGGTAGCTGCTGATAGGTGGGAGTTTGCAAATGAATACTTCAGAAAAGGAGCAAAGCACCTTCTATGTGAAATCCACAGGAGGAAAACCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
tcttaat putative branch site (score: 3)
catttcc putative PPT
tatagtataagaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatgtggtctaatgaatattttcattaggatagtatataactatatatctatagtataagaatgtttttcttaatttatttctcccattacatttccagGGTTTCAAGAAGATAGTTGCAGATAGATGGGAGTTTGCAAATGAGTACTTCAGAAAAGGAGGGAAGCACATGTTGTCTGAAATCCACAGAAGAAAAACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
-catgtgg
- - - - - -aatgaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagaa