Sequence
atgc intronic sequence ATGC exonic sequencegtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 1
gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcg--aatcgttctgatggtggtgcacgcgt-----gcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
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-------------ggttgtgtgtgtgagagag-actgtgttcttctgtaattcgtgtgattttttttctcttacgagtcgactatatttatatgtgcgtatgcctaatttgcagATGTGCTTCGACTGCAACGCCAAGAACCCGACCTGGGCCTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCTGCCGTCCACCGTAGCCTCGGCG
upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G36700.2 (Glycine max), 3'ss of exon 1
------------------------------------------------------------------------------------------gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
|| ||| | ||| | || | | | | | || | | || | ||| ||| ||| || | || ||| | || || | | |||||||| |||||||| || || |||||||| || |||||||||||||| || || |||| ||||||||||| ||||| || || |||||||| |||||||
gtttggtttttgtaattttgaatttcgaatttcaatttgagtgcataatcgttggttccgtgatttcgttttatacagtttgaaattttcgt-ttgtggtttctgatttacgagatctggtttcagatctgcaatacctgtgcttgtgcgtttgatttttgaattggtatggtttttttgttgtttttt--tttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTTCTCTGCATCGATTGCTCCGCCGTACACCGCAGTCTCGGCG
upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------------------------gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
|| ||| | ||| | || | | | | | ||||| |||| ||| ||| ||| || | || | | | | | | | |||||||| |||||||| || || |||||||| || |||||||||||||| || || |||||||||||||||| ||||| || || |||||||| |||||||
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgt-ttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttt--tttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------gtactgttgattcaatt--gatcgc--gctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacg-cgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
| || ||| || ||| | | | ||||| | | | || | | | | | || | | | || | || | || | | | | ||||||| || |||||||| || ||||||||||| |||||||||||||| || || |||||||||||||||||||||| || ||||| | || || || |
gtctgttctttactgaatttcttcgcggtatttttaaatgttttcttttgtttttattttggtttttggttttctgttcttgagatctggttcagatctggaggtttcgcgattggatctcggttttttattttgtttctttttggtttttagATGTGTTTTGATTGTAATGCGAAGAACCCGACTTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGACTGCTCCGCCGTGCATAGGAGTCTTGGGGMapped 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|32926976|gb|CF031788.1|CF031788EST: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACACCAAG ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST:
gi|89759291|gb|DY688160.1|DY688160EST: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST:
gi|6637089|gb|AW261361.1|AW261361EST: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST:
gi|32926997|gb|CF031809.1|CF031809EST: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG ATGTGCTTCGATTGTACCGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST:
gi|31358549|gb|CD442906.1|CD442906EST: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST:
gi|32925344|gb|CF030156.1|CF030156EST: CAGACAAGAGCGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
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:
40 (upstream exon),
45 (downstream exon)
Score:
12CGGGCTCGTTCTGGTGTGGGTGGGCACCATGGCGGCCACAGAGGCCTCGGCAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
115CGGGCTCGTTCTGGTGTGGGTGGGCACCATGGCGGCCACAGAGGCCTCGGCAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
120CGGGCTCGTTCTGGTGTGGGTGGGCACCATGGCGGCCACAGAGGCCTCGGCAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
Block sizes:
46 (upstream exon),
47 (downstream exon)
Score:
85CGGGCTCGTTCTGGTGTGGGTGGGCACCATGGCGGCCACAGAGGCCTCGGCAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
ttctgat putative branch site (score: 85)
actttttttt TA-rich tract