Sequence
atgc intronic sequence ATGC exonic sequencegtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os06g46310.3 (Oryza sativa), 3'ss of exon 11
gtaatcagtgaactttactgttgtactcttctatac-ctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatat-----gttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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gtaattgctaaaatttactatttcaaagtataatacattcatccttctgataat-ctataatg---aacttcaatgcacatgagaattaaattgctccatcccatatgtcaacttttaactaatgccttactttattatgcacagATGATACTGTCATTTGAGCTTCCTTTTGCTCTAGTTCCACTCCTAAAATTCACAAGCAGCAGGACAAAAATGGGGCAGCACACAAATTCAAAAGCC
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 12
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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---------------------------ctgttagactgtgta---ttgataaatct--tgtgtatgatacaattgaccttgt-----gagattatcatttgggttattgctgaagtccttctgtatctgctg-at-cagATGATCCTATCATTTGAGCTTCCTTTTGCTTTGATTCCACTCCTCAAGTTCACTAGCAGCAAAATCAAGATGGGAGAACATGTCAACTCAATCACG
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA07G02680.1 (Glycine max), 3'ss of exon 10
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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------------------------------tcagattgtgta---ttgataaatcc--cgtgtatgatacaattgaccttgtgagattatcatttgggct--atatgtgctgaagtccttctgtatctgctg-at-cagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGATTCCACTCCTCAAGTTCACTAGCAGCAAAATCAAGATGGGAGAACATGTCAACTCAATCTCG
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 11
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacatg-cagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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-----------------------------tttgtgtatggtatgcataattttttgtttacaacagagttggtctctggctcc--------tctctgccataccatgtgctga---agcccttctttgtctattcatcagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGGTTCCACTCCTCAAGTTTACAAGCAGCAAAACCAAGATGGGGACACATGTCAACTCTACCATG
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA13G44710.1 (Glycine max), 3'ss of exon 10
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagct-ccgtatatgttaactaatgccttgctcggctacatg-cagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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--------------------------------------tttgtgtatggta--tgcataattttttgt-tcacaacagagttggtctctggctcctctctgccataccttgtgctgaagcccttctttgtctattcatcagATGATCTTATCATTTGAGCTTCCTTTTGCTTTGGTTCCACTCCTCAAGTTTACAAGCAGCAAAACCAAAATGGGGACACATGTCAACTCTACAATG
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatg-ttaactaatgcc---ttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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-------------------------------------------------------------gtataacctcttccataacttaaatccaatctcttaatcacatacatactttattaacatcaatcatcttatatgtttgcagATGATCTTATCCTTTGAACTCCCATTTGCTTTAGTCCCACTTCTCAAATTCACAAGCAGTAAAACCAAAATGGGCTCACACGCCAATTCACTTGTG
upper sequence: GRMZM2G069198_T01 (Zea mays), 3'ss of exon 12
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 12
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacat--gcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
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--------------------------------gtttctcaacacggttacatatccaca-tagagaatttt-ttgctcatgtctatt-----ttttagctct-tacggaaaacctaac-ctttgatgtattgtcttggcagATGATCTTATCATTTGAACTCCCTTTTGCTCTCATTCCACTTCTCAAGTTCACCAGCTGCAAGACTAAGATGGGTGCATATGTCAATTCGACCATGMapped 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|32794093|gb|CD946329.1|CD946329EST: CAATTATTGGTGGTTCTTCAGCAGCTGGCCAGTTGATTATCATTGCATCG ATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTA
genomic: CAATTATTGGTGGTTCTTCAGCAGCTGGCCAGTTGATTATCATTGCATCGgtaatcagtg ... ctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTA
EST:
gi|19437199|gb|BM953609.1|BM953609EST: CAATTATTGGTGGTTCTTCAGCAGCTGGCCAGTTGATTATCATTGCATCG ATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTC
genomic: CAATTATTGGTGGTTCTTCAGCAGCTGGCCAGTTGATTATCATTGCATCGgtaatcagtg ... ctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaaggtttttagctccgtatatgttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
aactaat putative branch site (score: 2)
tatatgttaactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcagtgaactttactgttgtactcttctatacctcaaaaacttaatagttctataatgtttaatctcattactcatgtcaattaaggtttttagctccgtatatgttaactaatgccttgctcggctacatgcagATGATACTGTCATTTGAACTCCCTTTTGCTTTAGTTCCACTCCTTAAATTCACCAGCAGCAAAACAAAGATGGGGCAGCATACAAATTCAATATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG