Sequence
atgc intronic sequence ATGC exonic sequenceCTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgctgacagaggaagtttttgcaccatccgggttgagattttggttcttgctccttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G109032_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g35340.1 (Oryza sativa), 5'ss of exon 3
CTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaa---ttttgctgacagaggaagtttttgcaccatccgggt-tgagattttggttcttgctccttgcag--------------------------------------------------------
|| ||||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||||||||||| ||||||||||| | | |||||| | ||||| ||| ||| | || || | || | ||| | ||| || ||||| |
CTGCTGCGGGAGGGCGTCGCCGGCGGCATCACCTGCGTTGACCTCTCGCCCGTCGCCGTCCAGCGGATGCGTGACCGCCTCGCGGAGCAGGGCACCGAGGgtaaatttttcactggtttatagtcgttatgaatcactaaaatctgaagaaattgtttgtggtccttaccaatggcactgccatttgggattttgggggtgaaatgttggccttctgcttcttgcagMapped 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|76289600|gb|DV029168.1|DV029168EST: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAG GCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
EST:
gi|211091483|gb|FK999631.1|FK999631EST: CGTCGCCGTCCAGCGGATGCGCGACCGC-TCGCCGCTCTAGGCACCAAAG GCGTGGATGCTGTGGTGGCGGACATGCTTGATCTGCCGTTTGAGCAAGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
EST:
gi|91055797|gb|EB166215.1|EB166215EST: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAG GCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
EST:
gi|211226341|gb|FL315377.1|FL315377EST: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTAGGCACCAAAG GCGTGGATGCTGTGGTGGCGSACATGCTTGATCTGCCGTTTGAGCAAGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
EST:
gi|71770180|gb|DR968117.1|DR968117EST: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAG GCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
EST:
gi|211091484|gb|FK999632.1|FK999632EST: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTAGGCACCAAAG GCGTGGATGCTGTGGTGGCGGACATGCTTGATCTGCCGTTTGAGCAAGAGA
genomic: CGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGA
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:
48 (upstream exon),
25 (downstream exon)
Score:
18CTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGAGCTTTGATCTCGTCATTGAAAAGGGCACCATG
Block sizes:
49 (upstream exon),
28 (downstream exon)
Score:
6CTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGAGCTTTGATCTCGTCATTGAAAAGGGCACCATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
18CTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGAGCTTTGATCTCGTCATTGAAAAGGGCACCATG
Block sizes:
37 (upstream exon),
49 (downstream exon)
Score:
7CTCCTGCGGGAGGGCGTCGCCGGCGGAATCACCTGCGTTGACCTGTCCCCCGTCGCCGTCCAGCGGATGCGCGACCGCCTCGCCGCTCTTGGCACCAAAGgtaattttgc ... ctccttgcagGCGTGGATGCTGTGGTTGCGGACATGCTTGATCTGCCGTTTGAGCATGAGAGCTTTGATCTCGTCATTGAAAAGGGCACCATG