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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagattttctgattggttagtttgggagtgaaaacattcttcagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 7
splice site 3'
intron type U2

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
|||  |||||||||||| || ||       || | ||  || |||| |||| | ||    | || |  |  |||||||    ||  |          |||| |||| |||||||| ||||||||||| || |||||||| |||||||||||||| |||||| ||||||||||||||||||||||||| ||||||||||||||||
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
  || |       |  |   |  ||     ||  |  ||  | ||  ||   | |    |     |||    |     |||||    |   | ||| ||||| || ||||| || || |||||  | ||||| || |||||||| ||||| ||||||||||| ||||| || |||||||| ||||| | ||| ||||| |
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
  ||    | |   ||   |  ||   ||     ||||   |   |   | |  |||||| | ||| |    ||   | | |  |   | |||  ||| ||||| || ||||| || || |||||  | ||||| || |||||||| ||||| ||||||||||| |||||||| |||||||| ||||||| ||| ||||| |
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
    |   || ||   ||  ||||    |  | | |   | |  |||| ||   | |    ||| |    |    |  ||| |    | | |     || |||| || ||||| || ||||||||  |||| || || |||||||| ||||||||||| || ||||| |||||||||||||| |||| ||| || ||||| |
tgtggataatattgctatgagttacacagatatttggttagaagcttctgagaatattatgtaatgacgatgaagtaatttcttatgcacaa--aactccagATTCGTATGGATACTCCATCTGGCATTAAAGACTCAATTCCTGCTTGGATCAAGTTCTCGGTGCAAGCTCCAGGTGAAATCCCATTCAATGGCATATACT

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|22472538|gb|BU037018.1|BU037018
EST:     CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG                         ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST: gi|211263679|gb|FL032932.1|FL032932
EST:     CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG                         ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST: gi|87155797|gb|DY400586.1|DY400586
EST:     CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG                         ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST: gi|26558524|gb|CA830759.1|CA830759
EST:     CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG                         ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
EST: gi|67022129|gb|CO450878.1|CO450878
EST:     CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAG                         ATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC
genomic: CTAACAATGCTGATGGTTCCCCTGCTATTCCTCATGGCTCACGTGTAAAGgtagattttc ... ttgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagattgtctctgctaaagggacttcttttttttttctctccctattgtttctagATACGGATGGACACACCATCTGGTGTTAAGGATTCCATTCCTGCCTGGATCAAGTTTTCTGTGCAGGCTCCAGGTGAAATACCATACAACGGTATATATT
           tgctaaa  putative branch site (score: 2)
                      cttcttttttttttct  putative PPT
                     acttctttttttttt  TA-rich tract