Sequence
atgc intronic sequence ATGC exonic sequenceCTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactgctaacttgtgtgtagccagctttggttcctacttcataattaatgacaacacttagttttgtttatgagataacaccgaattgagccatgtttacttattgccattacgtatcactatatcactaacaattaacaagtaaaccttgtttactgcaatgatttgcatgtgacattgtgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149224_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g29170.2 (Oryza sativa), 5'ss of exon 2
CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactgctaacttgtgtgt-agccagctttggttcctacttcataattaatgacaacacttagttttgtttatgagataacaccgaattgagccatgtttacttattgccattacgtatcactatatcactaacaattaacaagtaaaccttgtttactgcaatgatttgcatgtgacattgtgcag
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CTTTTGAGGGGGCTGATGTTGTTTTCCACATGGCTGCACCAGATTCGTCTATCAACAACTTTCACCTTCATTATTCAGTTAATGTTGAGGgttggtacttctaacttgtatgccatgcagctttggttcttaatt--------atcattgtacagattgttgtttatgagatatcg----atccagttatttttattttcaa-------------------------------------------------------------------------------
upper sequence: GRMZM2G149224_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT1G47290.1 (Arabidopsis thaliana), 5'ss of exon 3
CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactgctaacttgtgtgtagccagctttggttcctacttcataattaatgacaacacttagttttgtttatgagataacaccgaattgagccatgtttacttattgccattacgtatcactatatcactaacaattaacaagtaaaccttgtttactgcaatgatttgcatgtgacattgtgcag
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GTTTTCAAGGAGCAGAAGTGGTGTTTCATATGGCAGCTCCAGATTCATCGATTAACAATCACCAGCTTCAGTACTCAGTTAATGTTCAAGgtttgaaga---aacttcaattttgtaaattttc-tctctgttttagaa---atgagaa--tttagttttgattgtt---ttgtttccaacttgtttgtggtag--------------------------------------------------------------------------------------
upper sequence: GRMZM2G149224_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0008g02200.t01 (Vitis vinifera), 5'ss of exon 3
CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactgctaacttgtgtgtagccagctttggttcctacttcataattaatgacaacacttagttttgtttatgagataacaccgaattgagccatgtttacttattgccattacgtatcactatatcactaacaattaacaagtaaaccttgtttactgcaatgatttgcatgtgacattgtgcag
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CATGCCAAGGAGCTGAGGCTGTTTTCCACATGGCTGCTCCAGATTCATCCATTAACAATCACCAGCTCCATCATTCAGTCAATGTGCAAGgtaaaaaatgctggctgctaag--attaaatttgacatgt-ttctgaaattgcttcc--cctttactttggctgatcaaatatttattttgtgttttattttaactttattctgtag-------------------------------------------------------------------------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|149072461|gb|EE160738.2|EE160738EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCA
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCA
EST:
gi|211071352|gb|FL056275.1|FL056275EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATG
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATG
EST:
gi|211071355|gb|FL056278.1|FL056278EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGT
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGT
EST:
gi|211074087|gb|FL056287.1|FL056287EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTG
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTG
EST:
gi|211074092|gb|FL056292.1|FL056292EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGTTATTGACGCTTGTAT
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTAT
EST:
gi|211074086|gb|FL056286.1|FL056286EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGTTATTGACGCTTGTATCCGTTGGCA-GGTGAAGAGACTC
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTG-CAAGGTGAAGAGACTC
EST:
gi|211071356|gb|FL056279.1|FL056279EST: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATG GAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCA
genomic: AGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCA
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
105CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCATCTATACTAGTTCACCTAGTGTCGTGTTTGATGGAGTTCATGGAATTTT
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
56CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCATCTATACTAGTTCACCTAGTGTCGTGTTTGATGGAGTTCATGGAATTTT
Block sizes:
45 (upstream exon),
46 (downstream exon)
Score:
42CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCATCTATACTAGTTCACCTAGTGTCGTGTTTGATGGAGTTCATGGAATTTT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
65CTTTTGAAGGGGCAGAAGTAGTTTTCCATATGGCTGCTCCAGATTCATCCATCAACAACTTCCACCTTCATTATGGAGTCAATGTCGATGgttggtactg ... cattgtgcagGAACAAAGAATGTTATTGACACTTGTATCCGTTGCAAGGTGAAGAGACTCATCTATACTAGTTCACCTAGTGTCGTGTTTGATGGAGTTCATGGAATTTT