Sequence
atgc intronic sequence ATGC exonic sequencegtaaaggattttatttgtgagaacaacttgtcctctagcattacttttgtgcaaatgagcttaccaagtaataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G030673_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g39090.1 (Oryza sativa), 3'ss of exon 2
------gtaaaggattttatttgtgagaacaacttgtcctctagcattacttttgtgcaaatgagcttaccaagtaataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
| || | ||||||| ||| || | |||| || || || ||||||| ||||||||| || |||||||||||||||||||||||| ||||||||||| ||||| |||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||
gtaccaactttgccttctctttgtgaaaaccttaaatcatttagctttgctcttctgcaaatt--cttaccaagcaa-aattgcagAGACTGAACAAGGAGTGGCACAAGCTATACTTCGTGGAAATATAGATTTTAAGCGAGAACCATGGCCCAATGTTTCTGATAATGCTAAAGATCTAGTTCG
upper sequence: GRMZM2G030673_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------------------gtaaaggattttatttgtgagaacaa-cttgtcctctagcattacttttgtgcaaatgag-------------cttaccaag-taataatt----gcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG-
||| | || |||||| | | |||| || ||| | | | || | || |||||| | | | ||| ||||| |||| |||||||||||||| || |||||||| ||| |||||||||||| | ||||| ||||||| | ||||||| | ||||||| |||||| |
taattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAAAAGGGAACCATGGCCCAGTATTTCTGAAAGTGCTAAAAGCCTTGTTAGG
upper sequence: GRMZM2G030673_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 2
----gtaaaggattttatttgtgagaacaac--ttgtcctctagcattacttttgtgcaaatgagcttacc----------aagtaa----taattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
| | || | | | ||| || || | || || | || | | |||| || |||| | | ||||||| |||||||||| |||||||| ||||||||||| || |||||||| || | || || ||||| ||| |||| || | ||| || ||| |||||
ggttgctttccttcctaatcctaggtgcaatgtttagagcctgtctttttttatctgtagaaatgctttccctttcatctaaagtgagtttttgatgcagAGTCTGAACAAGGGGTTGCACAGGCTATTCTTCGTGGGCTAATAGATTTCAAAAGGGATCCATGGCCAAATATTTCAGAGAGTGCCAAGAGTCTAGTTCGMapped 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|87157297|gb|DY402086.1|DY402086EST: TGGTGTTATCTTGTATATTTTGTTATGTGGCGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTCCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|22542072|gb|BU092510.1|BU092510EST: TGGTGTTATCTTGTATATTTTGTTATGTGGCGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTCCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|148964672|gb|EE015635.2|EE015635EST: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|76287362|gb|DV026930.1|DV026930EST: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|26559284|gb|CA831519.1|CA831519EST: TGGTGTTATCTTGTATATTTTGTTATGTGGCGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTCCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|78090253|gb|DV518627.1|DV518627EST: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
EST:
gi|78090252|gb|DV518626.1|DV518626EST: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTG AGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
genomic: TGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTA
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:
303CCTGAAGTCTTGAAGAGGAACTATGGACCTGAAATAGACATATGGAGCGCTGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
131CCTGAAGTCTTGAAGAGGAACTATGGACCTGAAATAGACATATGGAGCGCTGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
161CCTGAAGTCTTGAAGAGGAACTATGGACCTGAAATAGACATATGGAGCGCTGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
71CCTGAAGTCTTGAAGAGGAACTATGGACCTGAAATAGACATATGGAGCGCTGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCGTTTTGGGCTGgtaaaggatt ... ataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtcctctagcattacttttgtgcaaatgagcttaccaagtaataattgcagAGACTGAACAAGGAGTTGCACAAGCTATTCTTCGGGGAAATATAGATTTTAAGCGAGAACCCTGGCCCAATGTTTCTGACAATGCTAAAGATCTTGTTCG
agcttac putative branch site (score: 71)
aagtaataatt TA-rich tract