Sequence
atgc intronic sequence ATGC exonic sequencegtagattttctgattggttagtttgggagtgaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g33460.1 (Oryza sativa), 3'ss of exon 7
gtagattttctgattggttagtt-------tgggagtgaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
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gtaagttttctgattggctatttacttagttgagggtttaatcatt-ttcaaaatgagcttactgagagatcttctttcaccttctta--------atttccagATTCGGATGGATACACCATCTGGCGTAAAGGATTCTATTCCTGCCTGGATTAAGTTTGCTGTGCAGGCTCCAGGTGAAATACCGTACAACGGTATATATT
upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 7
-gtagattttctgattggttagtttgggagtgaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctcc--ctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
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tctacaaaagaataaggacaacattttagctgggataatcatacatgttaaatgtttctagatatcttgaactaagcatctcttaaacatatatttgtagATCCGCATGGATACGCCCTCTGGAATCAAGGACTCAATTCCTGCTTGGATTAAGTTTTCTGTACAGGCACCTGGTGAAATTCCATATAGCGGAATATACT
upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G37750.1 (Glycine max), 3'ss of exon 7
-gtagattttctgattggttagtttgggag----tgaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
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gataatcatacatgttaaatgtttctagatatcttgaactaagcttgtgggtattctctg-tgaagtgtgaactaaatatctcttaaacatat-atttgtagATCCGCATGGATACTCCCTCTGGAATCAAGGACTCAATTCCTGCTTGGATTAAGTTTTCTGTACAGGCTCCTGGTGAAATTCCATACAGCGGAATATACT
upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 7
----gtagattttctgattggttagtttgggagt-gaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
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tgtggataatattgctatgagttacacagatatttggttagaagcttctgagaatattatgtaatgacgatgaagtaatttcttatgcacaa--aactccagATTCGTATGGATACTCCATCTGGCATTAAAGACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCATATACTMapped 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|22472538|gb|BU037018.1|BU037018EST: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST:
gi|211263679|gb|FL032932.1|FL032932EST: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST:
gi|87155797|gb|DY400586.1|DY400586EST: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST:
gi|26558524|gb|CA830759.1|CA830759EST: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST:
gi|67022129|gb|CO450878.1|CO450878EST: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
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:
479AATGAGTACGGCGTTTGGGAGATTTTCCTGCCTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
Block sizes:
48 (upstream exon),
48 (downstream exon)
Score:
76AATGAGTACGGCGTTTGGGAGATTTTCCTGCCTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
Block sizes:
49 (upstream exon),
36 (downstream exon)
Score:
7AATGAGTACGGCGTTTGGGAGATTTTCCTGCCTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
146AATGAGTACGGCGTTTGGGAGATTTTCCTGCCTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
tgctaaa putative branch site (score: 146)
cttcttttttttttct putative PPT
acttctttttttttt TA-rich tract