Sequence
atgc intronic sequence ATGC exonic sequencegtttggtcactgttcttattgctctgctattttgtttgccacaaacttacttacctgagcaagttgtttttttacttctcacttggaagaacactgggaacttttggtcaccttatgcacattagtttgatgcactggtgcatctcttgctgactaaatttcaatatggcaattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G002614_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g46750.2 (Oryza sativa), 3'ss of exon 3
gtttggtcactgttcttattgctctgctattttgtttgccacaaacttacttacctgagcaagttgtttttttacttctcacttggaagaacactg---ggaacttttggtcaccttatgcacattagtttgatgcactggtgcatctc--ttgctgactaa---------atttcaatatggcaattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
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gtttggtcaataat-ttattatattttctatatatatgtcatgagatgggatgct-----aatttctttgaacattgttaattgaattaaacattgtatgaactttttgttcagcttggaagcaacactttgatgtattcttatatcttgattaaagaatcataccatctcattttaatttgataattttgcagGGAAGCCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACGATGGAG
upper sequence: GRMZM2G002614_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G23850.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttggtcactgttcttattgctctgctattttgtttgccacaaacttacttacctgagcaagttgtttttttacttctcacttggaagaacactgggaacttttggtcaccttatgcacattagtttgatgcactggtgcatctcttgctgactaaatttcaatatg-gcaattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
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----------------------------------------------------------gtaagatccatcttt-ttcctttcagatatctatattcagtctcattatttcctttttttgtcgcaatgtgat-tattcccttgcttaatcttg--tgtttcctgatatgtgggatattagGAAGCAA--AATGTGGTATCTATGGTGCAAATTCTCCTGAGTGGATTATCAGCATGGAGMapped 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|149085681|gb|EE175195.2|EE175195EST: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAG GGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
genomic: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
EST:
gi|211061436|gb|FK992067.1|FK992067EST: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAG GGTAGTCGTTGTGGTATCTATGGAGCTAATTGTCCTGAATGGATTATCACA
genomic: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
EST:
gi|148986409|gb|EE030148.2|EE030148EST: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAG GGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
genomic: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
EST:
gi|8401341|gb|BE056975.1|BE056975EST: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAG GGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
genomic: ACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACA
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:
47 (upstream exon),
49 (downstream exon)
Score:
228GCTGGTGCATATACTTGGAAGACATATAAGGAGGTGTTTGACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
327GCTGGTGCATATACTTGGAAGACATATAAGGAGGTGTTTGACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
321GCTGGTGCATATACTTGGAAGACATATAAGGAGGTGTTTGACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
Block sizes:
48 (upstream exon),
48 (downstream exon)
Score:
155GCTGGTGCATATACTTGGAAGACATATAAGGAGGTGTTTGACATTGCAAACAAAATTGGTAACTCTATTAGGAGCTGTGGACTTGCGAAGgtttggtcac ... aattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgatgcactggtgcatctcttgctgactaaatttcaatatggcaattttgcagGGTAGTCGTTGTGGTATCTATGGTGCTAATTGTCCTGAATGGATTATCACAATGGAG
gactaaa putative branch site (score: 155)
actaaatttcaatat TA-rich tract