Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os09g15170.1 (Oryza sativa), 3'ss of exon 12
gtaagca--ccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
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gtaagcagcccaaacat-acatgaca-aaatgattttttttcgctttttaa-atgtatttaa-tggacagtacactcattttattgtgtcttcagCTGCTGTGGGACTATCCTTTTTGCAATTCACCAACATGAACTCAATGCGCAACCTCTTCATTGTTGGTGTCTCCCTCTTTCTTGGCTTATCAATACCAGA
upper sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 11
lower sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
gtaagcaccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
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-------gtgagtattagtat-cactattttgttttgattcctgtattcttaactttgcaatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGAMapped 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|89763225|gb|DY690516.1|DY690516EST: AATATTGGCTTCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGGGGGGCTGTCCTTTATGCAGTTCACCAACATGAACTCGGTGCGCA
genomic: AATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST:
gi|50334184|gb|CO529310.1|CO529310EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST:
gi|60398289|gb|DN231105.1|DN231105EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST:
gi|50334185|gb|CO529311.1|CO529311EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
EST:
gi|22545627|gb|BU097986.1|BU097986EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGGTATGCTTGGAATTGTCG CTGCTGGGGGGCTCTCCTTTATGC
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGC
EST:
gi|26457048|gb|CA828631.1|CA828631EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACAT
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACAT
EST:
gi|211271038|gb|FL034395.1|FL034395EST: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCG CTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
genomic: TCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCA
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),
46 (downstream exon)
Score:
83GAAAATTTGGAGCACTTTTTGCCTCCATTCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
Block sizes:
43 (upstream exon),
47 (downstream exon)
Score:
10GAAAATTTGGAGCACTTTTTGCCTCCATTCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
Block sizes:
48 (upstream exon),
44 (downstream exon)
Score:
13GAAAATTTGGAGCACTTTTTGCCTCCATTCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
Block sizes:
49 (upstream exon),
37 (downstream exon)
Score:
17GAAAATTTGGAGCACTTTTTGCCTCCATTCCTTTCACAATATTCGCTGCCATTTACTGCGTTATGTTTGGAATTGTCGgtaagcacca ... atgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA
agctaat putative branch site (score: 17)
tgttatactttaaa TA-rich tract