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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggtttggggatctagattaacatgattgaagcaacatggctcactggtatacgtaatccattatagaagctatggcttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG

Basic information

species Zea mays
transcript GRMZM2G004528_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 4
atggtttggggatctagattaacatgattgaagcaacatggctcactggta--tacgtaatccatta-tagaagctatggcttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
 | |||   |  |||  ||||| ||| ||| | ||||||| |  ||| ||   || | |  |  | |  |  ||  |||   | | | |    | | ||| |||||||| ||||| |||| ||||||||||||||| || ||| |||||||||||||||||||||||||||||||||| |||| ||| ||||| |||||||||
-tagttccag--tctgcattaagatggttggaacaacatgacaaacttgtgactatgaatgctgtaaacattagacatgatattttttttattacttaaatagGGAGTTCAAGGAAAAGAGCAAAGTGGACAAGGTGGTGGTGTTGTGGACTGCAAACACTGAAAGGTACAGCAATGTCTGTGTTGGGCTCAATGACACAATG

upper sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G02210.2 (Glycine max), 3'ss of exon 4
atggtttggggatctagattaacatgattgaagcaacatggctcactggtatacgtaatccattatagaagctatggcttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
   || |  |   |||  | ||  |   |  |   ||||  |  ||    |||| | |||  | ||   |   | |   ||  ||| | ||   |  ||||| |||||||||    | ||||||||||||||| ||||| ||||||||||| ||||| || ||||| |||||| |   ||  || || || ||||| |||
---gtatatgt-cctatttcaatctacataca--tacata-catacatacatacatgatctgt-atcttattcaggttctaactgttgacatgaactcagGGCGTTTAAGGAAGCCACCAAAGTGGACAAGGTGGTTGTCCTGTGGACTGCCAACACAGAGAGGTATAGCAATTTGGTTGTAGGCCTTAATGACACCATG

upper sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G10170.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------------------------------------atggtttggggatctagattaacatgattgaagcaacatggctcactggtatacgtaatccattatagaagctatggc--ttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
                                                                             |   ||     |||    ||| ||     ||      | | |   |  |   ||||||   |   |||   | ||    | | |  |    ||  ||  |||||||| || ||||| ||||||||||| || || || || |||||||| |||||||| ||||| |||||||||||    | |||||| |||||||| | |
gtaacacaacgtctttactattgtaataaaatattctaaggtaacataacggtttatgtttattagcaaattaaatgtaaattttctctctgctataaaatttccaaaattcattagatgtatcatgatcgtaatttttacaagacaatttgataatgaaaattttaaaaataattagGGAGTTCAAAGAGAAAAACAAAGTGGATAAAGTGGTGGTACTGTGGACGGCAAACACAGAAAGATACAGCAATGTGGTGGTTGGTCTTAACGACACGACG

upper sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT2G22240.1 (Arabidopsis thaliana), 3'ss of exon 3
atggtttggggatctagattaacatgattgaagcaacatggctcac-tggtatacgtaatccattatagaagctatggcttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
                                | |    | || || | | | |  || |   |||   |   ||| | |  | | |    | |     ||||||||||||||||||||||||||||| ||| | |||||| | |||||||||||||| ||  | || ||||||||   ||  || || ||||| || | |
--------------------------------gtatatagtcttacatagcaaaattagttagttagttagtgtattgat-gtgtttgaatattt--ttagGGAGTTTAAGGAGAAGAACAAAGTGGATAAGTTGGTTGTGTTATGGACTGCAAACACAGAGCGTTATAGCAATGTGATTGTAGGACTTAACGATACGACG

upper sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S267_10V6.1 (Physcomitrella patens), 3'ss of exon 4
--atggtttggggatctaga-ttaacatgattgaagcaacatggctc-actggtatacgtaatccatt---atagaagc-tatg---gcttatatgtagccaatgaaa---cagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
  | ||  |  |  |||| | ||     ||      || | ||  || |  |   |||| ||     |   || || || | ||   ||| |  |  |  || ||  |   |||||| |||||||   ||||||| ||||||||| | ||||||||||||||||| ||||| ||| | |||||  ||||    | ||||||||| ||||| | |
gtagggcgtccgattctatacttcttccgagccctacagcctgtttctagagagttacggaaattgatcgcatcgatgcgtttgaatgctgaggtcaaaacattgtgattgcagGGACTTTAAGGCTCAGAACAAGGTGGACAAGATCGTTGTGCTGTGGACTGCTAACACCGAACGATACAGTGATGTGATCGTTGGTCTCAATGACACGAAG

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|31359455|gb|CD443812.1|CD443812
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|148946953|gb|EC892243.2|EC892243
EST:     TCAAGGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAAAACAAAGTGGACAAGGTAGTTGTGCCTGTGGAC
genomic: TCAAGGG-CACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGC-TGTGGAC
EST: gi|211037209|gb|FK948218.1|FK948218
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|13516068|gb|BG518344.1|BG518344
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|31353868|gb|CD438225.1|CD438225
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|32851119|gb|CD990800.1|CD990800
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATAATCAAGGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTTTGTTGTGCTGTGGACTG
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTA-GTTGTGCTGTGGACTG
EST: gi|76021574|gb|DT948744.1|DT948744
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGACCAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|149101031|gb|EE187129.2|EE187129
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACT
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACT
EST: gi|33098126|gb|CF058086.1|CF058086
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATAATCAAGGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTTGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|76281435|gb|DV021003.1|DV021003
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAAACAA-GTGGACAAGGTAGTTGTGCT
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAA-CAAAGTGGACAAGGTAGTTGTGCT
EST: gi|6021328|gb|AW066256.1|AW066256
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAGGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|31364344|gb|CD448699.1|CD448699
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|60346856|gb|DN213829.1|DN213829
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|149071428|gb|EE159822.2|EE159822
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAG
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAG
EST: gi|211359831|gb|FL003518.1|FL003518
EST:     ATCAAGGGCACCA-GAA-GAGCAGGTGGAGCAGATCATCAAAGA-ATCAG                         GGAGGTTAAGGAGA-GAACAA-GTGGACA-GGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|6601698|gb|AW256094.1|AW256094
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAGGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|71434804|gb|DR815854.1|DR815854
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAAGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|148952106|gb|EC897898.2|EC897898
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGAC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGAC
EST: gi|148936773|gb|EC880909.2|EC880909
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGGAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|71321477|gb|DR797439.1|DR797439
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCT
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCT
EST: gi|211032313|gb|FK948194.1|FK948194
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGRGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|67029746|gb|CO458495.1|CO458495
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAGGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
EST: gi|149079979|gb|EE168997.2|EE168997
EST:     ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAG                         GGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC
genomic: ATCAAGGGCACCAAGAAAGAACAGGTGGAGCAGATCATCAAAGATATCAGgtattcggac ... aatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtatacgtaatccattatagaagctatggcttatatgtagccaatgaaacagGGAGTTTAAGGAGAAGAACAAAGTGGACAAGGTAGTTGTGCTGTGGACTGCAAACACTGAAAGGTACAGCAATGTATGTGCTGGTCTCAACGACACAATG
                attatagaa  TA-rich tract