Sequence
atgc intronic sequence ATGC exonic sequencegtttggaactaactcccatgttatctttactcctgcatgcttttatttggtcgctaccataactgacaactgtttgtttgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 26
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 27
gtttggaactaactcccatgttatctttactcctgcatgcttttatttggtcgctaccataactgaca-actgtttgtttgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
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gtttggaa-----tgtctagttttgcattatactttatattattcatttgcagttataatgacacagatattttctatttgttatgaagGGTATTTTGGCAGATGTCCTAAAATGTCTTGGCGACAATAAGAAGCACATGAGGGAATGCACATTGACTGCTCTAGACTTATGGGTTGCTGCAGCTCAAC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 26
lower sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 29
--gtttggaactaactcccatgttatctttact---cctgcatgcttttatttggtcgctaccataactgacaactgtttgt--ttgtta--tgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
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gtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttc-tgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 26
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 27
--gtttggaactaactcccatgttat-ctttactcctgcatgcttttatttggtcgctaccataactgacaactgtttgt--ttgtta--tgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
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gtaagaggattctgttctgtttttgtatttttttcccatttggtactgttttgccgttttc-tatttgaatatttcttgaaatggtttgttgcagGGTATTCTGTCTGATGTATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTGCTGAATACATTAGACGCTTGGCTGGCTGCTGTTCATC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 26
lower sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 18
gtttggaactaactcccatgttatctttactcctgcat-gcttttatttggtcgctaccataactgacaactgt-------ttgtttgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
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gtttgttggcttctcatgatatttatttaatcctttgttgtgttttcattatcctttagaaacttgaagtttatcatggcattgtttttt-tgcagGGCATTCTTTCTGATATTCTGAAATGCCTTGGTGACAATAAAAAGCATATGAGAGAATGCACATTGACTACTCTAGATGCTTGGCTTGCTGCTGTTCATCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|32932391|gb|CF037203.1|CF037203EST: TTGGTGGCCTTGCATATGCTATGGGACCTTCTGTTGAAAAGTCAAGCAAG GGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATG
genomic: TTGGTGGCCTTGCATATGCTATGGGACCTTCTGTTGAAAAGTCAAGCAAGgtttggaact ... tgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatgcttttatttggtcgctaccataactgacaactgtttgtttgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
aactgac putative branch site (score: 2)
tttgttt putative PPT
ttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggaactaactcccatgttatctttactcctgcatgcttttatttggtcgctaccataactgacaactgtttgtttgttatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG