Sequence
atgc intronic sequence ATGC exonic sequence...atggatcaattaacatggttttcaaatggagcatttaacagtgttggttagctttctgtttgatgcatttaatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g34910.1 (Oryza sativa), 3'ss of exon 4
atggatcaattaacatgg--ttttcaa--atggagcatttaacagtgttggttagctttctgtttgatgca---tttaatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
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ctggatt--ttgacatgaaatgttcaacggttgacaagtttac--cttcagtattttatctatttgatgcaaaatctaatgtaaccctttattat---tatgaacagGCAAAGTTGAAGATGTTACAAAAGTACAGACACTTCTCTTCAGCGCTACTATACCAGAGTGGGTGAAGAAG
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 4
atggatcaattaacatggttttcaaatggag---catttaacagtgttggttagctttctgtttgatgcatttaatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
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-ctttgcaattagtattacccaaaatttcatgttcattcactattgttggatgataggatgttttcagtaacacaatggtc-tcttgtttgatattttg-cagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
upper sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 4
---atggatcaattaacatggttt-tcaaatggagcatttaacagtgttggttagctttctgtttgatgcatt-taatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
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ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgct--ttgataggatgttttcagtattacaatgatctcttgtttgatattt---tgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAMapped 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|56691642|gb|CX129545.1|CX129545EST: TGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCGAGCTCATTCTTG GCAAGGTAGAAGATGCTACCAAAGT
genomic: TGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCGAGCTCATTCTTGgtatgctcac ... atatgaacagGCAAGGTAGAAGATGCTACCAAAGT
EST:
gi|18964493|gb|BM661037.1|BM661037EST: TGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCGAGCTCATTCTTG GCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTC
genomic: TGATGAGATGCTTAACATGGGCTTTGTTGATGATGTCGAGCTCATTCTTGgtatgctcac ... atatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttagctttctgtttgatgcatttaatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
tgctaat putative branch site (score: 2)
taatatatatatgaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggatcaattaacatggttttcaaatggagcatttaacagtgttggttagctttctgtttgatgcatttaatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
- - - - - - - - - - - - - tggagca
- - - - - - - - - - - - - - - - - - - - -tgttggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctgc