Sequence
atgc intronic sequence ATGC exonic sequencegtattatacatatttatgatcccttcaatatgttgattagtacaagagaaacacatctgaaatggaaattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G050658_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g13870.4 (Oryza sativa), 3'ss of exon 3
gtattatacatatttatgatcccttcaatatgttgatta-----gtacaagagaaacacatctgaaatggaaattttg-tagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
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gtattttacatattcttgatcctaccattaagttgataatataaataaaaaggaataatgcttgacattttttttttggtagGGATCCTATACTCTGTGCTTATAACTGCGGTAATCACAGATGCAATTAAGGATGGTGTGGGTCGTCCACGCCCAGATTTTTTCTGGCGCTGTTTCCCAGA
upper sequence: GRMZM2G050658_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G18450.2 (Glycine max), 3'ss of exon 3
----------gtattatacatatttatgatcccttcaatatgttgattagtacaagagaaac--acatctgaaatggaaattttgta----gGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
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gtacttttctgtcttttagaaacttttcctaaccttattttgcatatcactttgctatagcctaacctatgtattgccaaatgcatattcagGCCTTTTATTTTCTGTACTCATTACTGCGGTGATAACGGATGCTATCAAAGATGGTGTTGGACGGCCACGCCCAGATTTCTTCTGGCGTTGTTTCCCTGA
upper sequence: GRMZM2G050658_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G25650.1 (Glycine max), 3'ss of exon 3
--gtattatacatatttatgatcccttcaatatgttgattagtaca--agagaaacacatctgaaatggaaattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
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gtacatttctgaaccttggaatgttttctctgtccttcttatcacattggaatactgaaacctattgctaaatgcaccagGCCTTCTATTTTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGA
upper sequence: GRMZM2G050658_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G41580.1 (Glycine max), 3'ss of exon 3
--gtattatacatatttatgatcccttcaatatgttgattagtacaagagaaacacat-ctgaaatgga------aattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
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gtacatttctgaaccttagaaggttttctctgtccttatttgcacatcacatcggaatactgaaacctattgctaaatgtatcagGCCTTCTATTTTCCGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGA
upper sequence: GRMZM2G050658_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 2
-----gtattatacatatttatgatcccttcaat---atgttgattagtacaagagaaacacatctgaaatggaaattt-------tgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
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gtatcactttttcccttcctagatttctttgagtcaggtactgttgtttccttgtggtgcattgcttaatggattatgtgtgcatgtttagGCCTTCTATTCTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAAMapped 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|34391242|gb|CF384470.1|CF384470EST: GATTTACTTCAAAAAGAAGAATTTTTATGATTTGCACCATGGCATACTGG GGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGG
genomic: GATTTACTTCAAAAAGAAGAATTTTTATGATTTGCACCATGGCATACTGGgtattataca ... aattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttcaatatgttgattagtacaagagaaacacatctgaaatggaaattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
tgttgat putative branch site (score: 4)
aaattttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatacatatttatgatcccttcaatatgttgattagtacaagagaaacacatctgaaatggaaattttgtagGGATTCTATACTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT