Sequence
atgc intronic sequence ATGC exonic sequencegttctaaaaacaatgcattttattctacctttatgttttaactatgcattattaccatttgatgataatttatttcatttcagttgtaaatattaataaaccatactgttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G005308_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g04010.1 (Oryza sativa), 3'ss of exon 4
gttctaaaaacaatgcattttattctacctttatgtttta----actatgcattattaccatttgatgataattta-tttcatttcagttgtaaatattaataaaccatactg----ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
| | | ||| ||| || | | ||| || || | | ||| ||| | ||||| | | | | | | ||| | || ||| || | || || || ||||||| |||||| || || |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| ||||| || |||||||| || |
--gtaatatataatatgttt-atccattcattagtttctagaacaaaacagatttttaac-tttgaaactgttctggtattaaatcatcagctcatggtaaagaaaccacttgaaattttcttgtagGTTAATGCTTCCAGCAGACCCAAAAACAGTGCTCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCAGTAATCACTGAGGAAGTCACTG
upper sequence: GRMZM2G005308_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g04200.1 (Oryza sativa), 3'ss of exon 4
gttctaaaaacaatgcattttattctacctttatgtttta--actatgcattattaccatttgatgataatttatt-tcatttcagttgtaaatattaataaaccatactg----ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
| | | ||| ||| || | | ||| || || || | || || | || | | | | | | ||| || || ||| || | || || || ||||||| |||||| || || |||||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||| || |||||||| || |
--gtaatatataatatgttt-atccattcattagtttctagaacaaaacaaagttttaactttgaactgttctgctattaaatcatcagttcatggtaaagaaaccacttgaaattttcttgtagGTTAATGCTTCCAGCAGACCCAAAAATAGTGCTCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCAGTAATCACTGAGGAAGTCACTG
upper sequence: GRMZM2G005308_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv17s0000g08620.t01 (Vitis vinifera), 3'ss of exon 4
-------------gttctaaaaacaatgcattttattctacctttatgttttaactatgcattattaccatttgatgataatttatttcatttcagttgtaaatattaataaaccatactgttcttttt------agGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
|||| | | || || | | | || | || | ||||| | | |||||| ||| | | | ||| | | | ||| || | | | |||| | ||||| |||| |||||| ||| ||||| || || ||||| ||||||| || || ||||||||||||||||| |||||| | |||||||| || ||||| || ||||
gtaaccttttttgtttctgacatttttgtgttagagatgaattacatttattcaa-atgcaa-agtgtgctttgatatgaatgtgtgtt-tttaaaatatgaat-ttgacactgcttactttggtttttgattgcagGTAACTGCTGCTAAAAGGCCAAAGAATAGTGCTTTAGAAGTTGATCTAGATTTTGAGCACAATGTGAGACCTCCTCCTGTAATCACAGAGGAGGTTACAGMapped 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|60347217|gb|DN214190.1|DN214190EST: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAG GTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
genomic: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
EST:
gi|9255313|gb|BE345781.1|BE345781EST: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAG GTTACTGCTTCTAGGAGGCCCAAAAACAGT
genomic: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGT
EST:
gi|31363813|gb|CD448168.1|CD448168EST: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAG GTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
genomic: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
EST:
gi|71764578|gb|DR962515.1|DR962515EST: ATGCAGGGAGAG GTTACTGCTTTTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
genomic: ATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
EST:
gi|31351205|gb|CD435562.1|CD435562EST: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAG GTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
genomic: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
EST:
gi|40303495|gb|CK347882.1|CK347882EST: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAG GTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
genomic: AAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGAT
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:
42 (upstream exon),
49 (downstream exon)
Score:
62TCTCTCAACTCACGAAAAGGAGCGTCTGAAGATGCGTACTAAAATAGAGCAAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
Block sizes:
42 (upstream exon),
49 (downstream exon)
Score:
71TCTCTCAACTCACGAAAAGGAGCGTCTGAAGATGCGTACTAAAATAGAGCAAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
Block sizes:
42 (upstream exon),
49 (downstream exon)
Score:
72TCTCTCAACTCACGAAAAGGAGCGTCTGAAGATGCGTACTAAAATAGAGCAAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
Block sizes:
42 (upstream exon),
46 (downstream exon)
Score:
25TCTCTCAACTCACGAAAAGGAGCGTCTGAAGATGCGTACTAAAATAGAGCAAATGGAGAAAGCTAATCTTGAACCCAGCACGTGGACCATGCAGGGAGAGgttctaaaaa ... ttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataatttatttcatttcagttgtaaatattaataaaccatactgttctttttagGTTACTGCTTCTAGGAGGCCCAAAAACAGTGCCCTAGAAGTGGACCTTGATTTTGAGCACAATGTAAGACCTGCCCCTGTAATAACCGAGGAAGTGACAG
tattaat putative branch site (score: 25)
ctgttcttttt putative PPT
tttatttcatttcagt TA-rich tract