Sequence
atgc intronic sequence ATGC exonic sequence...tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 9
tagactttga-ggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtt---tttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
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-aaacttttatatattctgcagct---gattctaatactacgtatcatataagtggtatactgcttgaaatgtcattagtccgttgctccttttctttcttcagTTATGGGATATAAACATGGATTCAGGCCCAGTTGCAACTTTCCAAGTTCATGAATATTTAAGACCTAAG
upper sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 9
----tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
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atcgacatctttcatttctgactttgtttgggggatttcttcttgtatgttataaattcttaaa-gcttcatctcatttca-ctaatgact--tgttttgtcagTTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTGAGACCCAAG
upper sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 9
----tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
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accgacacctttcatttctgactttgtttgggggatttcttcttgtatgttataaattcttaaa-gcttcatctcatttca-ctaatgact--tgttttgtcagTTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAG
upper sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 9
tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtt-tctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
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-gtgggttatattcctagacaatctccatctgagaaaataatggttttcatttgtacaacttatagcttctgactgaattactgatctatatgattttcagCTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAG
upper sequence: GRMZM2G069631_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 9
tagactttgaggatcaaggaacttttg-gtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
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aggtctttgcatcacaaggaattgatatgtactatttgtctttctggcttaagttagggccttgaactaatcactggaatttgttttacttgcttttc-agTTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAGMapped 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|211227826|gb|FL399539.1|FL399539EST: TTGCAAGGGATGGAAGACACATTCTTAGTCGTGATTATATGACACTCAAG TTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCAT
genomic: TTGCAAGGGATGGAAGACACATTCTTAGTCGTGATTATATGACACTCAAGgtttgcaaca ... gtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCAT
EST:
gi|71772341|gb|DR970277.1|DR970277EST: TTGCAAGGGATGGAAGACACATTCTTAGTCGTGATTATATGACACTCAAG TTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCAT
genomic: TTGCAAGGGATGGAAGACACATTCTTAGTCGTGATTATATGACACTCAAGgtttgcaaca ... gtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
agttaac putative branch site (score: 3)
ccgtttttgtttctcc CT-rich tract
tagaaataattttagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagactttgaggatcaaggaacttttggtgctctgcccttttgtgataaatatgtttatctgctagaaataattttagttaaccgtttttgtttctccagTTGTGGGATCTAAACATGGATTCAGGCCCAGTTGCAACTTTTCAGGTTCATGAATACTTACGTCCTAAG
- - - - - - - - - - - - -tggtgct
- - - - - - - - - - - - - - - - -tgccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctag