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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctcctgcagatttatgatttgtattccaaaagatgttgaattttgtattcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

Basic information

species Zea mays
transcript GRMZM2G031609_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 7
gtttctcctgcagatt---tatgattt---gtattccaaaagat-gttgaattttgta-ttcatcctagacacacagtgtc---tactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
|||  | || ||||||   ||| ||||    |  |  |||  |  | ||  || |  | ||||| ||||||  ||||  |     ||| ||||| || ||||||||||||||||||| || ||||||||||| |||||| |||| || ||||| || ||||| ||||  ||||||||||||||||||||||||||| |||
gttgtttctccagattgaatattattttaaatgatttaaactaccgatgggttatacaattcattctagactaacagcattactcactgttttgctcaagGTAATGACTGCACACCCTGAATGTGCTACATTAGACACATCAATTCTCGATGCTCTGCATATTATGCGCGATGGCAAATTCTTGCATATTCCTGTTGTTG

upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA04G38480.1 (Glycine max), 3'ss of exon 7
------------------------------------------------------------gtttctcctgcagatttatgatttgtattccaaaagatgttgaatt---ttgtattcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                             ||||| || | |  || || ||  | || | |   ||   |||||   |||  ||  | ||  |  |      ||   ||||||     |||| |||||| || ||||  | |||||  |  | || |||||||| ||||||||||| ||||| |||||| |||| || ||||| ||| |||||||  | |
gtggctatgattttattttgtgaagtaaccatacaggaaattggtttattctgtgatgtcttttcttcttccggcttgtgcttattttttctaggtattcagaattaatttgactttcttctttattcttcccttcacttattttttgttagGTGATGACTCCAAACCCACAATGTGCATCTCTAGAGACAACAATTCTTGATGCACTGCATATGATGCATAATGGGAAGTTCTTACATCTTCCTGTGGTGG

upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
---------------------------------------------------------------------gtttctcctgcagatttatgatttgtattccaaaagatgttgaattttgtattcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                                      |||||  ||     || ||||||    |     | || || |    ||  || ||  |     |    |   | |  || | ||  ||||||||||| || |||| || |||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattt----tttgctaaatattcagaactgagttgatttt--cttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG

upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 7
---------gtttctcctgcagatttatgatttgtattccaaaagatgttgaattttgt---attcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
               |     ||| |   |  | | |     |  |||     | ||||   | | | | |     |||  ||| |  | |  | ||| |||| |||||| || |||| || || || || ||||| ||||||||||||||||| ||||| || |||||||| || || || || ||| |||||||| | |
cttgaaacgagagacctaatggatcttatagctctctctttgatcatgcaagttcttgttgtacttagcatgatttcact-tgtgttttttccttatctagGTGATGACTCCAAACCCTGAATGCGCAACCTTGGAGACAACAATCCTTGATGCGCTACACATAATGCATGACGGGAAGTTTTTACATCTTCCTGTTGTAG

upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------------------gtttctcctgcagatttatgatttgtattccaaaagat--gttgaattttgtattcatcctagacac--acagtgtctactattttga-------------tccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                         |     | || | ||     | || | ||  |    |   ||  |||  | |  |  | |  ||  |   |||     |  |||||||             | ||||| |||||  |  | || || ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttttaattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacctatgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG

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|76290187|gb|DV029755.1|DV029755
EST:     TGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAG                         GTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGAT
genomic: TGCGTGTTGTGGCCCAAAATCTTTCTCCTGAGTTAACTCTAGTAGAAAAGgtttctcctg ... tttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgttgaattttgtattcatcctagacacacagtgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                            ttttgat  putative branch site (score: 4)
                                         ctatttt  CT-rich tract
     ttgaattttgtatt  TA-rich tract