Sequence
atgc intronic sequence ATGC exonic sequencegtccgtcctcatcctcctatgtcacgattgctataaagaatcccgacttttagatggaaataccatatttgaatttgtgattgatgagtgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G070218_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g51410.2 (Oryza sativa), 3'ss of exon 3
gtccgtcctcatcctcctatgtcacgattgctataaagaatcccgacttttagatggaaataccatatttgaatttgtgattgatgagtgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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gttagttctgaaacttctcattcctccaaattatcagcactgaaaaagatca-atatatagatggcatctgaatttctggttgataaattaaaa--catgtctgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGAAAGATCATGTCTGAAGTTTTGGGTTATTCGTTCTTTGATAG
upper sequence: GRMZM2G070218_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G31730.2 (Glycine max), 3'ss of exon 3
gtccgtcctcatcctcctatgtcacgattgctataaagaatcccgacttttagatggaa-ataccatatttgaatttgtgattgatgag--tgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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--------------------gtca--gtttcttggttgacttcttgtgcttacatggtatgctttggaaattactttggcattaaaaatgctttgaatttg-acgtgcagGAATGATGGGCTCTGGGAAAACAACAGTGGGGAAGATAATGTCGCAAGTGCTTGGTTATTCATTTTGTGATAG
upper sequence: GRMZM2G070218_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT2G21940.4 (Arabidopsis thaliana), 3'ss of exon 4
gtccgtcctcatcctcctatgtcacgattgctataaagaatcccgacttttagatggaaataccatatttgaatttgtgattgatgagtgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
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gtcagt--ttctttgtctgctctatgtttgc-atatgg----tctacttcttgata-----cttatatgtaatctgatgattccgtggtga----------acacagGAATGATGGGTTCTGGGAAAACAACTGTGGGAAAGTTAATGTCCAAAGTGCTCGGTTATACGTTCTTTGACTGMapped 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|60338581|gb|DN205554.1|DN205554EST: TTACCTAGTAG GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCT
genomic: TTACCTAGTAGgtccgtcctc ... gcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCT
EST:
gi|211363191|gb|FL041521.1|FL041521EST: ATCAGAAGAAGTTCTGTTCTACTTGAACGGGAGGTGTATTTACCTAGTAG GAATGATGGGTTCTGGAAAAAGTACTGTGGG
genomic: ATCAGAAGAAGTTCTGTTCTACTTGAACGGGAGGTGTATTTACCTAGTAGgtccgtcctc ... gcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatggaaataccatatttgaatttgtgattgatgagtgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
gattgat putative branch site (score: 4)
atatttgaatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccgtcctcatcctcctatgtcacgattgctataaagaatcccgacttttagatggaaataccatatttgaatttgtgattgatgagtgagagtgcgcgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATTATGTCTGAAGTCTTGGGTTATTCGTTCTTTGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG