Sequence
atgc intronic sequence ATGC exonic sequence...atgttcttatggaggttttttctgatgaagttcaaatattatgtttcaaatatgggttttatgttttattttttaattttttacattgttttccttgcagGTATCTGTTGGCAGAAGCAGGTGACACATTATTTGCTTCCTTTATTGGAACAAAGCAGTATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0630g00010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G148913_T01 (Zea mays), 3'ss of exon 2
atgttcttatggaggttttttctgatgaagttcaaata-ttatgtttcaaatatgggttttatgttttattttt---taattttttacattgttt--tccttgcagGTATCTGTTGGCAGAAGCAGGTGACACATTATTTGCTTCCTTTATTGGAACAAAGCAGTATAA
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------cattccattccttattttaagtagtccaaataatgacaatctgcacatgattctgctgtattttttttatataaatccaatcactggtgaaattatgtagGTATCTGTTAGCAGAGGCTGGTGACACCCTATTTGCTACATTTATTGGCACAAAGCAGTACAA
upper sequence: Vv00s0630g00010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G09740.1 (Glycine max), 3'ss of exon 2
atgttcttatggaggttttttctgatgaagttcaaatattatgtttcaaatatgggttttatgttttattttttaattttttacattgttttcct--tgcagGTATCTGTTGGCAGAAGCAGGTGACACATTATTTGCTTCCTTTATTGGAACAAAGCAGTATAA
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gtttgatccatgtagttgtccccaactagtgggaaaaacttggtggttgttgctgttgttgtgtgatactcat--acttattagattattatgttgatgtagGTATTTGTTGGCAGAGGCAGGAGACACTTTATTTGCCTCCTTTATTGGAACAAAGCAGTACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaatatgggttttatgttttattttttaattttttacattgttttccttgcagGTATCTGTTGGCAGAAGCAGGTGACACATTATTTGCTTCCTTTATTGGAACAAAGCAGTATAA
ttttaat putative branch site (score: 3)
ttgttttcctt putative PPT
ttttatgttttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttcttatggaggttttttctgatgaagttcaaatattatgtttcaaatatgggttttatgttttattttttaattttttacattgttttccttgcagGTATCTGTTGGCAGAAGCAGGTGACACATTATTTGCTTCCTTTATTGGAACAAAGCAGTATAA
- - -cttatgg
- - - - - - - - - - -ctgatga
- - - - - - - - - - - - - - - - caaatat