Sequence
atgc intronic sequence ATGC exonic sequence...tgtctgttagggccaaacagttcagactgtttgaaccgcgactgttttatactgaatgatggagggttttgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 3'ss of exon 2
--tgtctgttagggccaaacagttcagactgtttgaaccgcgactg-----ttttatactgaatgatggagggttttgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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tgtattgatgaggcacctactcttttgtttttgagcaaatcatttgaccctttttatattgaatgacgaagg--tttgtgtgtgtttgatt-----cactggagcagGCACAGGTGGACTGGAAGATATGAAGCCCACCTCTGGGATAACAGTTGCAAAAAGGATGGACAGACAAGGAAGGGAAGGCAAG
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA17G17010.1 (Glycine max), 3'ss of exon 3
-tgtctgttagggccaaacagttcagactgtttgaaccgcgactgttttatactgaatgatg-gagggttttgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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gcaatgagcatcctccaacacatttaactgttc--atcaccctttttgtgttttgtgttttatgatttttctctttatttctaaagggtgtttgtgtatcagGCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAG
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G40380.1 (Glycine max), 3'ss of exon 1
tgtctgtt--agggccaaacagttcagactgtttgaaccgcgactgttttatactgaatgatggagggttttgtttgtgttggattggat-tcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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tccttgctcaagaagttaagggttca---tgtaagattaatgtcaacaacatatttgactgtttattttttgctttgatttccaaagaatatttgttcaacagGCATAGGTGGACTGGTAGATATGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAG
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 3
-tgtctgttagggccaaa-cagttcagactgtttgaaccgcgactgttttatactgaatgatggagggttttgtttgtgttggattggat-tcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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ttaagtgttcatgtaagagcaattccaacaacata---tttgactgtttacttttattttttttatgttttgctttaatttctaaggaatgtttgttcatcagGCATAGGTGGACTGGTAGATACGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAG
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 4
tgtctgttagggccaaacagttcagactgtttgaaccg-----cgactgttttatactgaatgatggagggttt-tgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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------tgagcaatgagcattctcaactcatttaactgttcatcttcctttttgtgttttgtgttttatgatttctctttatttctaaagggtgtttgtgtatcagGCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAG
upper sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------------------------------------------------------------------tgtctgttagggccaaacagttcagactgtttgaaccgcgactgttttatactgaatgatggagggtt--ttgtttgtgttgg-attg--gattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
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gttagttcatattcttttccttcatctttggtcttatctataatgttttttgaattgagtttgttttctagtttatttgaggtctccctgcaggtgtattgtatcactgttttctctattatattgtcctcgccttttctgctggaaatattgtaggtttggttttccaagtaaacattgtcaatttatttccccagGCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGMapped 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|94479778|gb|EB708736.1|EB708736EST: CACTCTTCAGTACACTATGACGTTGCCTCCTCTGCGGTATTGATCATATG GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAG
genomic: CACTCTTCAGTACACTATGACGTTGCCTCCTCTGCGGTATTGATCATATGgtatttgcac ... actggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatactgaatgatggagggttttgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
ttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtctgttagggccaaacagttcagactgtttgaaccgcgactgttttatactgaatgatggagggttttgtttgtgttggattggattcactggagcagGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - ccaaaca
- - - - - - - - - - - - -actgttt
- - - - - - - - - - - - - - - - - - - - - - - - - -ctgaatg