Sequence
atgc intronic sequence ATGC exonic sequencegttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G161566_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g51410.2 (Oryza sativa), 3'ss of exon 3
gttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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gttagttctgaaacttctcattcctccaaattatcagcactgaaaaagatcaatatatagatggcatctgaatttctggttgataaattaaaacatgtctgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGAAAGATCATGTCTGAAGTTTTGGGTTATTCGTTCTTTGATAG
upper sequence: GRMZM2G161566_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G31730.2 (Glycine max), 3'ss of exon 3
gttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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gtcagtttc--ttggttg-acttcttgtgct-tacatggtat--gctttg----gaaattac----tttggcattaaaaatgctt--tgaat-ttgacgtgcagGAATGATGGGCTCTGGGAAAACAACAGTGGGGAAGATAATGTCGCAAGTGCTTGGTTATTCATTTTGTGATAG
upper sequence: GRMZM2G161566_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT2G21940.4 (Arabidopsis thaliana), 3'ss of exon 4
gttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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gtcagtt-tctttgtctgctctatgtttgc---atatggtct--acttcttgat-----------acttatatgta-atctgatgattccgtggt-gaacacagGAATGATGGGTTCTGGGAAAACAACTGTGGGAAAGTTAATGTCCAAAGTGCTCGGTTATACGTTCTTTGACTGMapped 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|213191774|gb|FM182092.1|FM182092EST: GAAGAAG-TCTG-TCTACTTAAACGGGAGGTGTATTTACTTAGTGG GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: GAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
gattgat putative branch site (score: 4)
atatttggatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG