Sequence
atgc intronic sequence ATGC exonic sequence...gcatatatcctaatgattagtttgctgctacaatgattttttaatcaatgggagtgtatgacgatttggttcatgagtttttttaattttccttgtatagGTTCCAGCTCGTGTTGCTGCTGCAGCAGCAGTTGCTCGTGCTATTGCATCATTACCTCCTCATCAGAGGCTAATTCTCCCATCAAGTTCTGAAGAATTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00930.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G19670.1 (Glycine max), 3'ss of exon 1
-----gcatatatcctaatgattagtt-tgctgctacaatgattttttaatcaatgggagtgtatgacgatttggttcatgagtttttttaattttccttgtatagGTTCCAGCTCGTGTTGCTGCTGCAGCAGCAGTTGCTCGTGCTATTGCATCATTACCTCCTCATCAGAGGCTAATTCTCCCATCAAGTTCTGAAGAATTGA
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ctgctgttcatgttcatacacatgttagtattcgtgtagtgactccttatttgtttgagtta------gagtcatattatcatgttttacaaatgttgttgaacagGTTCCAGCTCGAGCTGCTGCTGCAGCGGCTGTAGCTCGTGCTCTTGCAGGGTTACCTCCTCATCAGAGATACAGTCTTTCATCAAGTTCAGAAGAACTAA
upper sequence: Vv06s0061g00930.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G08830.1 (Glycine max), 3'ss of exon 1
------gcatatatcctaatgattagtt-tgctgctacaatgattttttaatcaatgggagtgtatgacgatttggttcatgagtttttttaattttccttgtatagGTTCCAGCTCGTGTTGCTGCTGCAGCAGCAGTTGCTCGTGCTATTGCATCATTACCTCCTCATCAGAGGCTAATTCTCCCATCAAGTTCTGAAGAATTGA
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cctgctgttcatgttcatacacgtgttggtgttcatgcagtgactccttatttgtttaagttagagcatatttt----catg---ttttacaaatgttgttgaacagGTTCCAGCTCGAGCTGCTGCTGCAGCTGCTGTAGCTCGTGCTCTTGCAGGGTTACCTCCTCATCAGAGATACAGTCTTTCTTCAAGTTCAGAAGAACTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatgggagtgtatgacgatttggttcatgagtttttttaattttccttgtatagGTTCCAGCTCGTGTTGCTGCTGCAGCAGCAGTTGCTCGTGCTATTGCATCATTACCTCCTCATCAGAGGCTAATTCTCCCATCAAGTTCTGAAGAATTGA
ttttaat putative branch site (score: 3)
tttttttaattttcct CT-rich tract
tttttttaattttcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatatatcctaatgattagtttgctgctacaatgattttttaatcaatgggagtgtatgacgatttggttcatgagtttttttaattttccttgtatagGTTCCAGCTCGTGTTGCTGCTGCAGCAGCAGTTGCTCGTGCTATTGCATCATTACCTCCTCATCAGAGGCTAATTCTCCCATCAAGTTCTGAAGAATTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - cctaatg
- - - - - - - - - - - - ctgctac
- - - - - - - - - - - - - - - - - - - - - - -caatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgag