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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgtggcactcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC

Basic information

species Zea mays
transcript GRMZM2G149802_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g64820.1 (Oryza sativa), 3'ss of exon 11
gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaa-------actaattgcaaaattgtggcactcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
              |||   | || ||   ||||  | |        |  | ||  | |  ||| ||  ||  ||       | || |||| |||||||    |||| ||||||||||||||| ||||| |||||||| ||| |||||||||||||||||||||||||||||||||| || ||||| ||||| || || || || |||||||
------------gtacagttttttttggaactttcttttgtttatgagattgcttatgtcttcagaaactacaaactgaagcattatttgccaaattgtcctgctcatctagGTTGAATATGGCGAGACTGATGCATGTCTTGCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCGCTTACACGCCAATTGACAAATATCAGCGGTAACC

upper sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA01G39430.1 (Glycine max), 3'ss of exon 12
gtaatttcattcaaacaaaata-ttgtgctgctt----ttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgtggc--actcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
            ||| |  ||| || |||   ||    |  |  | |       | | || ||   | ||  | | |    || ||||  | | |||     |||   | || ||||||| ||||| |||||||||||||| ||| |||| ||||||||| |||| |||||||| || || ||||| ||  | || || || ||||| || |
------------aaagactatacttttgccatttggaatatttgatcgatggaacatttaattagtttatctgcttttttgctgattgtcatagtgttcttgacttgtccagATTGAATACGGTGAAACAGATGCATGGCTGTCTATGGAACTCATGTTTTATTTAAGTGTTCTTCCGCTCACACGTCAGCTGACTAATATAAGTGGCAATC

upper sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT5G67100.1 (Arabidopsis thaliana), 3'ss of exon 11
----gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgtggcactcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
    |  ||| ||   ||    | |    |   | |  |   | |  || ||  |  || ||  |||    |||||  |||   |||    ||| |     ||    || |||||| ||||||||| ||||||||| | ||  ||||||||||||||||| | |||||||| || || || |  ||  | || ||||| ||||| || |
taaagggattgcagataacagcagtcacttaaggttgatgagtgat-gactgcatcttaattg-ctcgcttgttat--aaccctttg----attttctt-ttctttcagATTGAATGTGGTGAGACGGATGCATGGTTATCCATGGAGCTCATGTTTCATCTAAGTGTTCTTCCTCTCACTCTCCAGCTTACTAACATAAGTGGCAATC

upper sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 10
gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgtggc--actcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
         || ||      || | |||   || |   | | | |   |      |  ||   || | |    |   |  ||   |   | ||    |       || ||||||||||||| |||||||||||| | ||  |||| || |||||||||||||||||||| || || || || |   | || || || |||||||| |
-------ggtttaactggtctactttgcctattataaatgaaaaatcattgcagctcctttggatgattgcatattatggttctcatcctatgtttaatggtttcagATTGAATATGGTGAAACAGATGCATGGTTATCCATGGAACTTATGTTTCATTTGAGTGTTCTTCCTCTTACTCGTCTTCTGACTAATATCAGTGGTAATC

upper sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 11
lower sequence: PP1S257_37V6.1 (Physcomitrella patens), 3'ss of exon 14
gtaatttcattcaaacaaaatattgtgctgcttttctctaacagaatgtcttctatttttctcataagttatgaaactaattgcaaaattgt--ggcactcacct--agGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
    | |  ||         |||| || | ||  |    |  ||  |||  | ||||| |    |   |  |||   || |||  || ||    ||   |  |    || |||||| ||| ||||||||||||||||| || ||||  |||||||||||  | |||||  | |||||||| || ||| | |||||||| |||||||| |
----tctggttttg----tgtattatgattctcgtgag-agtagtttgttctatatttgttctgttgatcctgaggttagttgataatttcctgggtgattgctcgcagATTGAATCTGGAGAGACAGATGCATGGCTGTCCTTGGGACTCATGTTTCACCTTAGTGTATTGCCACTGACTCGGCAACTCACCAACATCAGTGGTAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctatttttctcataagttatgaaactaattgcaaaattgtggcactcacctagGTTGAATATGGTGAGACAGATGCATGGCTTTCTTTGGAGCTCATGTTTCATTTGAGTGTTCTCCCACTGACACGACAATTAACCAACATTAGTGGTAACC
                                            cactcac  putative branch site (score: 2)
                                              ctcacct  CT-rich tract
                  ttatgaaactaatt  TA-rich tract