Sequence
atgc intronic sequence ATGC exonic sequencegcaaggatcaagttctaaatttgtcaaccctacaatggctgaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g04710.2 (Oryza sativa), 3'ss of exon 3
gcaagga-tcaagttctaaatttgtcaaccctacaatggctgaaggtgat---ctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
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gtaagaaatctaattacacttcta-caatcttgaaataagtaaaggcaatgttttccttttctgtgtgtaagtgtagAATGAAGATGGAGGATGGGGTTTGCACATTGAGGGCCACAGCACCATGTTTGGCTCAGCGTTGACATATGTTTCTTTGAGATTGCTTGGGGAGGGGCCAG
upper sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 4
gcaaggatcaagttctaaatttgtcaaccctacaatggct-------gaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
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gtaagaacttcatgccattttgctccttaatctatgggcttctcctagtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
upper sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34577 (Selaginella moellendorffii), 3'ss of exon 3
gcaaggatcaagttctaaatttgtcaaccctacaatggctgaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
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-----------gtgtgtaatctttctttctagcgatgttcgtgaattttttgtcttt----ctg-----gaagAACGAAGATGGCGGCTGGGGATTGCACATTGAAGGGCACAGCACGATGTTTGGCACTGTACTTGTTTATGTTTCTCTACGGCTACTTGGCCAAGAACCAG
upper sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ09445 (Selaginella moellendorffii), 3'ss of exon 3
gcaaggatcaagttctaaatttgtcaaccctacaatggctgaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
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------------------gtgtgt-aatctttc--tttctagcgatgttcgtgaattttcgtctttctggaagAACGAAGATGGCGGCTGGGGATTGCACATTGAAGGGCACAGCACGATGTTTGGCACTGTACTTGTTTATGTTTCTCTACGGCTACTTGGCCAAGAACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtcaaccctacaatggctgaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
atctgat putative branch site (score: 4)
tgattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaaggatcaagttctaaatttgtcaaccctacaatggctgaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG