Sequence
atgc intronic sequence ATGC exonic sequencegtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 1
gtctgcattagtcatacttattttcatttagtactaaaaatgtt-tagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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gtctgcaatcgtcataaaataaataaatctgcattcaaaaagttatagctagacactcaggtagacgatttcatgctgaatatttttgtatttttgtgctagATTTTCTTCTTATTGTCCTGAAGGACCTTCTTCCACGCCGGCCTGAGCTAAGACTTGTTTTGATGAGTGCAACCCTTAACGCTGAGTTATTCTCTTCATA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 7
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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---------------------------gtagataaataactgttttac--ttcaattttctattttatatgatacttacccctg--gttttcccatgtcagATTTTCTTCTCATTGTCCTGAAGGAACTTCTCCCTCATCGCCCTGATTTGAGGTTGATTTTGATGAGTGCTACCTTAAATGCTGAGCTTTTTTCTTCATA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 2
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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-------------gtagatttctgaacttgattgtg----tctttgata-tttagaagattttttatgataatgcttttgcatttt---tttgtgtgacagATTTTCTCCTCATTGTTCTTAAAGATCTCCTAGCCCGCCGACCAGAACTGAAACTGATTTTAATGAGTGCTACCCTTGATGCTGAGCTGTTCTCTTCATA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 10
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaattt----atgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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---------------------------gtagaattttgagcttcattgaatcattttcttttagaacatttctaaatattcatattcttgcattttttgtgacagATTTTCTGCTTATTATCCTTAAAGAACTTCTTCCACATCGACCAGAACTGAAACTGATTTTGATGAGTGCTACCCTAGATGCTGAGCTCTTCTCTTCATA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 7
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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---------------------------gtagctaaataattgttt--tattccaattttctattttatatgatacttaccactg--gttttcacatgtcagATTTTCTTCTCATTGTCTTGAAGGAACTTCTCCATCATCGTCCTGATTTGAGGTTGATTTTGATGAGTGCAACCTTAAATGCTGAGCTATTTTCTTCATA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 6
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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---------------------------gtaatattcaaattgactg--aatgtcattatttg-gtgtttcaatttcttatggtagtctgcatttatttcagATTTTCTCCTTATTGTCCTAAAAGACCTGCTTCCTCGTCGGCCAGAATTGAGGCTGATTCTGATGAGTGCAACTCTTAATGCTGAGCTTTTTTCCTCCTA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 7
gtctgcattagtcatactt-attttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
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----gtaaaatgtggacttgatgttctgtttttccttgagaaga--ggaaatgtgat--ttcttac-----catgata--catgtttg-------attccagATTTTCTGCTTATTGTCCTGAAGGATCTCCTTCCTCGCCGGCCAGAACTGAGGTTGATTTTGATGAGTGCAACCTTAGATGCAGAACTTTTCTCATCCTAMapped 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|31351858|gb|CD436215.1|CD436215EST: GAGGCATGAATGAAG ATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGA
genomic: GAGGCATGAATGAAGgtctgcatta ... tttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
tgctaat putative branch site (score: 2)
tcttttttgtgtcttt CT-rich tract
atttttgtaaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgcattagtcatacttattttcatttagtactaaaaatgtttagcaatgtactcatttttgtaaatttatgctaatcttttttgtgtctttgtgctagATTTTCTTCTTATTGTCTTAAAGGATCTTCTTCCACGTCGCCCTGAGCTGAGGCTTATATTGATGAGTGCAACCCTTAATGCTGAGCTATTCTCTTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG