Sequence
atgc intronic sequence ATGC exonic sequence...cttcttcttaatataataccgtgggtggtctttcccctaccggccgagtttttttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 1
cttcttcttaatataataccgtgggtggtctttcccctaccggccgagttttt---ttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
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--ctatatacttctatttgtatttctgttctttttattttcgggtgtactgttggatgttattgcttttatgctatttactaatagtgt-tttggtagtgcagATGAAAACTGGCTGTGTGGCACTTGTGTTGTGTTTAAACATTAGTGTTGATCCGCCGGATGTGATCAAAATCTCCCCTTGTGCAAGAAAGGAGTGCTGGA
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 1
cttcttcttaatataataccgtgggtggt-ctttcccctaccggccgagttt-ttttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
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--tccctctaaaatgttctaatgattgtttctttaagatgcttatatgttatatctttggtaagaagtatgctctattttaactcttaactttgtggtgcagATGAAGACTGGATGTGTAGCTCTAGTATTATGTTTAAACATTAGTGTCGATCCTCCAGATGTAATAAAGATATCCCCTTGTGCCAGAATGGAGTGCTGGA
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G41510.1 (Glycine max), 3'ss of exon 1
cttcttcttaatataataccgtgggtggt-ctttcccctaccggccgagttt-ttttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
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-ttcctct-aaaatgttctaatgattgtttctttaagatgcttatatattatatctttggtaagaagtatgctctattttaactcttaactttgtggtgcagATGAAGACAGGATGTGTAGCTCTAGTATTATGTTTAAACATTAGTGTCGATCCACCAGATGTAATAAAGATATCCCCTTGTGCCAGAATGGAGTGCTGGA
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 1
cttcttcttaatataataccgtgggtggtctttcccctaccggccgagtt--tttttggat-tgtttacatgatcttta--ctaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
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----cctgtaatccgatctggtcaatcattgtgcttgatgcttacaaattcattattgtacgtatttaggtctgctttggtttaactcccgagttt-taatgcagATGAAGACAGGATGTGTAGCTCTTGTTTTATGTTTAAACATTAGTGTTGATCCACCTGATGTAATTAAGATATCTCCTTGTGCCAGAATGGAGTGCTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtttttttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
tactaac putative branch site (score: 0)
attgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcttcttaatataataccgtgggtggtctttcccctaccggccgagtttttttggattgtttacatgatctttactaacaatggattttgtagtgcagATGAAGACAGGATGTGTTGCACTTGTATTATGTTTAAACATAAGTGTGGATCCACCTGATGTAATTAAAATTTCCCCTTGTGCAAGAATGGAGTGCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA