Sequence
atgc intronic sequence ATGC exonic sequencegtagggaagatcaaaattctctatcttaaactgggctaaacgaagctgccaaagttactgattccagctttgcctttctgttctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063355_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g10290.2 (Oryza sativa), 3'ss of exon 4
gtagggaagatcaaaattctctatcttaaactgggctaaacgaagctgccaaagtt----------actgattccagctttgcctttctgttctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
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gtaagaaaggctgtgatccttt--cttcgatgtggttaaggaaggctcataatgttcatagtcattactgattccagctttgccttcgtcatcttattttagGCTACCGCTCAACCTTCATATTTTGTCGCAGAAGAGCCTGAAGATGACAACATCCTTCGTACTAGGACATATGACGTTAGCATCAC--------------
upper sequence: GRMZM2G063355_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g41110.1 (Oryza sativa), 3'ss of exon 4
gtagggaagatcaaaattctctatcttaaactgggctaaacgaagctgccaaagtt----------actgattccagctttgcctttctgttctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
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gtaagaaagactgtgatcct--atcttcgatgtggttaagaaaggctcataatgttcatagtcattaccgattccagctttgccttcgtcatcttattttaggctaccgctcaaccttcatattttgtcgcagAAGAGCCTGAAGATGACAACATCCTTCGTACTAGGACATATGACGTTAGCATCAC--------------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|33770858|gb|CF273152.1|CF273152EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|211327148|gb|FL012767.1|FL012767EST: GGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACCA
genomic: GGAAGATATACCTGACATGGATACTTATGAAGACACAAGGG-ATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|211327149|gb|FL012768.1|FL012768EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACNA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|148971664|gb|EE022387.2|EE022387EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|26559206|gb|CA831441.1|CA831441EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|50331765|gb|CO526891.1|CO526891EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
EST:
gi|22542051|gb|BU092489.1|BU092489EST: AGGAAGATATACCTGACATGGATACTTATGAAGACACAGGGGATAATTTG GCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
genomic: AGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATA-TTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAA
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 3 RNA-Seq libraries.
Block sizes:
33 (upstream exon),
49 (downstream exon)
Score:
28ATGGAATAAAGTCTATCCCCTCTTACTTTAGCGGTGGCAAGGATGAAGAGGAGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATATTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
Block sizes:
10 (upstream exon),
40 (downstream exon)
Score:
1ATGGAATAAAGTCTATCCCCTCTTACTTTAGCGGTGGCAAGGATGAAGAGGAGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATATTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
Block sizes:
25 (upstream exon),
36 (downstream exon)
Score:
3ATGGAATAAAGTCTATCCCCTCTTACTTTAGCGGTGGCAAGGATGAAGAGGAGGAAGATATACCTGACATGGATACTTATGAAGACACAAGGGATATTTGgtagggaaga ... ctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacgaagctgccaaagttactgattccagctttgcctttctgttctaattgcagGCTGCTGCTGAACCATCATACTTTATCGCAGAAGAACCAGAAGATGACAACATTCTTCATACCAGAACATATGATGTTAGCATAACGTAAGCTCTTTTAT
ttctaat putative branch site (score: 3)
ctttgcctttctgttc CT-rich tract
ttctaatt TA-rich tract