Sequence
atgc intronic sequence ATGC exonic sequence...ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaattatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g21660.1 (Oryza sativa), 3'ss of exon 6
-ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaattatgtccatgttttttctctgatcttat-tagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA-
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gttctcttcaagcatgttttttttctctcatgtgatggttaattaa--agtgtttttgctttgagcttcagttattcatatctatgatgcgatgttaaacagCTTTTCGAGTGGTGGTGAAGATGGATATGTAAGGCTGCACCATTTTGATTCTGACTACTTCAACATCAAGATTTAAACCTAGAAGTTCTGAA-ACTCTGAG
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g16660.1 (Oryza sativa), 3'ss of exon 6
ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaa---ttatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA-
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--tcttcaagcatattttctcacatgtcatggt-taatttatgttgttcagaaagtgttttgctttgagcttcagttcttcatgtataatacggtgttaacagCTTCTCGAGTGGTGGTGAAGATGGATATGTAAGGCTGCACCATTTTGATTCTGACTACTTCAACATCAAGATTTAAAGCAAGAAGTTGTGAA-ACTCTGAG
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g16660.3 (Oryza sativa), 3'ss of exon 6
-------------------------------------------------ctttgtagaaacct-ttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaa---ttatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA
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tggtgaaaaagaaaatttatgagagctgctttatgtgatagctagtttatattcttcaagcatattttctcacatgtcatggt-taatttatgttgttcagAAAGTGTTTTGCTTTGAGCTTCAGTTCTTCATGTATAATACGGTGTTAACAGCTTCTCGAGTGGTGGTGAAGATGGATATGTAAGGCTGCACCATTTTGA----------------------------------------------------
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G03610.2 (Glycine max), 3'ss of exon 7
---ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaattatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGA--TAAAGAACACCAGACTAACCCGA
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gcacttcagtgatacagctttct-taatggtctcgtttaat--aactgtcagactgtttcttttacttctatactggtctctcatattcttcttcttgtgtagTTTTTCAAGTGGAGGTGAAGATGGTTATGTACGGTTGCACCACTTTGACCCAGATTATTTCAACATCAAAATATAGTGCCGGATGGTTTGTGGTTAGCAT--
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT2G46290.1 (Arabidopsis thaliana), 3'ss of exon 8
-ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaattatgtccatgttttttctctgatct--tattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA
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gtaaactaacaaaatttgattttgattgattgatacaatcc-tcagttgatgagagtgttttttaggctttgttgctgagtgttttttggaatgtattttcagTTTCTCTAGTGGAGGTGAAGACGGCTACGTGAGACTGCATCATTTTGACTCCAATTACTTCAACATCAAGATTTAGATTCTTTGAACATGTCTTTCCATT
upper sequence: GRMZM2G028834_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT2G46280.3 (Arabidopsis thaliana), 3'ss of exon 6
ctttgtagaaacctttttctcttaggtt--ctgaagtagtttatctagtataaagttt---gttttt-ttctaattatgtccatg--ttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGA---CTAACCCGA
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gtaaattaacaacatttggattttgattgattgacacaatcctcacatgatgaggttttgagtgtgtgttttggctctctcactgagtttgtggaatgtatatttcagTTTCTCTAGTGGAGGTGAAGACGGTTACGTGAGGCTGCATCATTTTGACTCCGACTACTTCAACATCAAGATTTAGATTCCGACTACTTGAACGTCAACC---Mapped 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|113693247|gb|DW845432.1|DW845432EST: GGACATTTTGGGCCAATTAATGCTTTGGCATTTAATCCTGATGGGCGGAG TTTTTCAAGTGGCGGTG
genomic: GGACATTTTGGGCCAATTAATGCTTTGGCATTTAATCCTGATGGGCGGAGgtaataattt ... atcttattagTTTTTCAAGTGGCGGTG
EST:
gi|113655803|gb|DW809491.1|DW809491EST: TTTGGCATTTAATCCTGATGGGCGGAG TTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGTCATCATTTTGATT
genomic: TTTGGCATTTAATCCTGATGGGCGGAGgtaataattt ... atcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTG-CATCATTTTGATT
EST:
gi|166671097|gb|EG308237.1|EG308237EST: GGACATTTTGGGCCAATTAATGCTTTGGCATTTAATCCTGATGGGCGGAG TTTTTCAAGTGGTGGTG
genomic: GGACATTTTGGGCCAATTAATGCTTTGGCATTTAATCCTGATGGGCGGAGgtaataattt ... atcttattagTTTTTCAAGTGGCGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtataaagtttgtttttttctaattatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA
ttttttctctgatctt CT-rich tract
aagtttgtttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttgtagaaacctttttctcttaggttctgaagtagtttatctagtataaagtttgtttttttctaattatgtccatgttttttctctgatcttattagTTTTTCAAGTGGCGGTGAAGATGGTTATGTAAGGCTGCATCATTTTGATTCCGACTACTTCAGCATCAAGATGTAGATAAAGAACACCAGACTAACCCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC