Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcgatgcttagagtttatgtattgctcttctgtatagcaacaaaagaataccttttaggtgatcattcacacaaatacgtattcatctcaatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g68260.1 (Oryza sativa), 3'ss of exon 1
gtatgttcgatgcttagagtttatgtattgctcttctgtatagcaacaaaagaataccttttaggtg-atcattcacacaaatacgt-attcatctcaatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
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-tctgatcactattagcaatatgtttatt-tttttctgtagtgct-cataaatatgcgtcataattttattattactattattattttgtcaatcttcaacagCAGTGGCTTGCCAAGATCAAATGAGGGCATGAGGCTCCTATTCTCAGCAGTTATTGGTGTTATGCTAGGTTACTTGTTTGGGATTTCATTTCCTACTGTC---Mapped 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|149075694|gb|EE164238.2|EE164238EST: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGG-C-C-G CAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
genomic: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
EST:
gi|488249|gb|T18830.1|T18830EST: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAG CAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATNCTCAGCAGTTAT
genomic: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
EST:
gi|71301944|gb|DR787048.1|DR787048EST: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAG CAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
genomic: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
EST:
gi|149062889|gb|EE157609.2|EE157609EST: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAG CAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
genomic: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
EST:
gi|71438212|gb|DR819262.1|DR819262EST: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGG-C-C-G CAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
genomic: AAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTAT
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:
36 (upstream exon),
44 (downstream exon)
Score:
68AGTCATTATAGTGCCAGTACCATTCTGCCAGCGAGTTCCTTTGCCACAAAAAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
Block sizes:
36 (upstream exon),
48 (downstream exon)
Score:
84AGTCATTATAGTGCCAGTACCATTCTGCCAGCGAGTTCCTTTGCCACAAAAAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
Block sizes:
36 (upstream exon),
47 (downstream exon)
Score:
139AGTCATTATAGTGCCAGTACCATTCTGCCAGCGAGTTCCTTTGCCACAAAAAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
Block sizes:
36 (upstream exon),
49 (downstream exon)
Score:
106AGTCATTATAGTGCCAGTACCATTCTGCCAGCGAGTTCCTTTGCCACAAAAAGATAACACTCGGATATCTCATGGCAAAACCTGGGATTTTAGGCCGCAGgtatgttcga ... caatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaataccttttaggtgatcattcacacaaatacgtattcatctcaatcttcagCAGTGCACAGAGATCAAATGAGGGCATGCGAATCATATTCTCAGCAGTTATTGGTGTTATGCTAGGGTACTTGTTTGGCATTTCCTTCCCTACCGTTAAT
ttcatctc CT-rich tract
acaaata TA-rich tract