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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG

Basic information

species Zea mays
transcript GRMZM2G057576_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattc--atttgtttggtacatgttt--cttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
|||||   ||  || |||| |  ||||||| |  ||||  || ||   ||||||  ||   |  ||   |||||| |   ||||   |  || | |||  || | |   || ||||||||||||||||||||||  | |||||||||||||||||||| || |||||||| || ||||| ||||| ||||||||||||||||||
gtaatgtattggtt-aagctattttgggct-agggtgaaatactctgctttgttctgtgggttgttgatttttatttgcaaaattaattatttactgtatatctct---tttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattc--atttgtttggtacatgttt--cttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
||||||  ||  || |||| |  ||| ||| |  ||||  |||||   ||||||  ||   |  ||   |||||| |   ||||   |  || | |||  || | |   || ||||||||||||||||||||||  | |||||||||||||||||||| || |||||||| || ||||| ||||| ||||||||||||||||||
gtaatttattggtt-aagctattttgtgct-agggtgaaatattctgctttgttctgtgggttgttgatttttatttgcaaaatttattatttactgtatatctct---tttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggta--catgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgac--cagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
          ||| ||  |   ||      | || ||     || |||| ||| | |  || |||  |||| | |  |   |   |    |||  |  | |  | ||||||   ||||| ||||| || |||||  |||||||||| |||||||| ||||| || ||  | ||||||||||| || || |||||||| ||||||
----------attctattc--tctgaaatctgatttgt----ttaatttttttagcatccaagttgatttt-tttttggtttatgtatagcataatttaatactttcttgattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACCATAACAGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 14
---------------------------gtaattggttattttaagcaaacttgggc--ttaatgtgaggtattcatttgtttggtacatgtttcttttatct--cagaaatccttgctt-cattgtcaatttgtatcttgac---cagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
                            ||  |  || |||||    ||| ||  |  ||  | ||  |  | |  || ||   |   |  || || |||||      |||   ||||  || |  | ||||  || ||||    ||||| ||||| || |||||||| |||||||| ||||||||||||||| | ||||| || |||||||| || ||||||||||| ||||||
gtgtgagagaaacctctgcagtttatattatataatttttttagttgaacctgaaccatttctttgtagc-tccccttattctctgtctccttgttatatctgttgacaatgtctgctgacagttaccattttcattttgatttgcagGGCGCTGTTAATTTTGCATTAATGATGTCTCAAATGGAGGGAGGTAGCCCAGTTGATTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
  |  |||  ||| ||     | ||    || || | |  | | ||    ||   ||  ||| |    ||  |||  ||       ||| || ||| ||||  |  |    |||| ||||| || |||||||| |||||||| ||||||||||||||||| ||||| || |||||||| || |||||||| || ||||||
--acatggaaattctataactatttttttttcatctcaa-tttgcagaaatt-aatagttgtataaactaattcaagaact-----ttctttttcattttggtttct----agGGTGCTGTTAATTTTGCATTAATGATGTCGCAAATGGAGGGAGGTTGCCCAGTTGATTACAACACCATAACTGATCTGTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
   |||| ||||  |  ||  || | |  |||   | |   | |   |  | |  | |  ||||  | | | |      |  ||  || |||   || | || |  |  | |||| ||||| || |||||  |||||||||| ||||||||||| ||||| || || ||||| ||||| || || |||||||| ||||||
--tattgtttatgat--gcttacctag--ttacctttatacaatatctaatatcttgccagtttactcttttt------ttatttgtttatttagaactcgttttattgc-agGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 14
gtaattggttattttaagcaaacttgggc-ttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
 ||  | ||| | | | ||   | | |       | |    |||  |||   ||| ||  |   |||||||| |             || |||   || |||| || |  | |||| ||||| || |||||  |||||||||| ||||||||||| ||||| || || ||||||||||| || ||||||||||| ||||||
ctatattgtt-tatgatgcttgcctagttacctttatacaatatcaattatcttgctagtttactcttttatttg------------tttatttagaacttgtttcattgc-agGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 14
------------------------------------------------------------gtaattgg--ttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtaca---tgtttcttttatctcagaaatccttgctt-cattgtcaatttgtatcttgac---cagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
                                                            |||  |    ||||| |  ||   ||||   |   ||||     |   ||||||| | |||   | | |   |||  |    |||   ||||  || |  | ||||  || ||||    ||||| ||||| || |||||||| |||||||| ||||||||||||||| | ||||| || |||||||| || ||||||||||| ||||||
gtgtgagagaaacctctgcagttcatacaatttttttatttgaacctgaaccatttctttgtagctccccttattgtctgcgtccttgttatatctgtggtaactgtttttgttttgaacagtatatgtacattaagttgacaatgtctgctgacagttaccattttcattttgatttgcagGGCGCTGTTAATTTTGCATTAATGATGTCTCAAATGGAGGGAGGTAGCCCAGTTGATTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
        |   |  || |    |||       | ||  | || ||     ||| |   | |||||||||  | |   ||  |   |  |||   ||  | | | |    ||||||||||| || |||||  |||||||| | |||||||| ||||| || ||  | ||||||||||| || ||||||||||| ||||||
-------atctctgaaatctggtttgtttaagttttgtagcatcca---agttgat---tttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 14
------------------------------------------------------------------------gtaattggttatt---ttaagca------aacttgggcttaatgtgaggtattcattt-gtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttga---ccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
                                                                         |||||| ||||    |||   |       || |||   |  | | |    ||||| |   || | | |  ||  |  | | | | || |  ||     | | ||  |||  || |||    | |||| ||||| || |||||||| |||||||| ||||||||||||||||| ||||| || |||||||| || |||||||| || ||||||
gtatgagagaatcctctgtagttcatattaactatttctttgtatttctcccattgtctgccacactgttggataattgattatcaaattatatattttctgacatggaaattctataactatttcatctcaatttgcagaaattaatagt-tgtaaaaactaattcaacaactttcttttttcattttggtttctagGGTGCTGTTAATTTTGCATTAATGATGTCGCAAATGGAGGGAGGTTGCCCAGTTGATTACAACACCATAACTGATCTGTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 14
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
     || |  | || | ||| |     || |   |  |   |  |   | |   ||   || | |||| |||   || |   | |||  || ||    ||    |||  |||||||| || || ||||| || |||||||| |||||||| |||||||||||||| ||||||||||||||||||||||| |||||||||
--gcctgctgttgtttatcaagc---aactaagcttttgccctgtaaaagatcaata---gtcttttttttctgctaattatcttcttttttttc---ctgctaattg--cagGGAGCAGTAAATTTTGCTTTAATGATGTCCCAAATGGAAGGAGGTTGTCCAGTTGACTACAACACTATCACTGATCTTTTCCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 14
------------------------------------------------------------------------------gtaattggttattt-taagcaaacttgg-gcttaatgtga---ggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
                                                                                 |   |||||   | | | ||||||  |  |||| |||   | | ||   | |  ||    || ||| |   | |  |  |||  |   |    | | ||||| ||| |    |||||||| || || |||||||| |||||||| |||||||| ||||||| |||||| ||||||||||| ||||||||||| || ||||||
gttagtgtggtgcactcttgatacttgcaacatactaaactatgaaaggactttactgaatatatgtggcgtaagcactggaagagttatgaatcaactaacttgttgaataatttgacctgatgttatatagaatgaagaatctttttcccaccgtattaata-tcaatagtcttttaatttttattt---gcagGGAGCAGTAAATTTTGCATTAATGATGTCTCAAATGGAAGGAGGTTCTCCAGTTGACTACAACACCATCACTGATCTTTTTCTTCAG

upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 14
--------gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtca-atttgtatcttgac--cagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
        |   ||   || | |  ||| | ||    || |||  |    | ||           | |   | |   ||   | |||   || ||   | |    |||| | | | |    ||||||||||| || |||||  | |||||||| ||||||||||||||||||||  | || |  || || || ||||||||||| ||||||
gtatgcaagcctttttctagtgtttgcagattttccttttatgaaattgttccagaaaggatcagcttaaatttcaaattggataaaattttcctgagtggaggcatttatttttgggttgcagGGAGCTGTAAATTTTGCGCTAATGATGTCTCAAATGGAGGGAGGTTGTCCCATTGATTTTAATACGATAACTGATCTCTTTCTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
                                     aatttgtat  TA-rich tract