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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG

Basic information

species Zea mays
transcript GRMZM2G138195_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 25
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                    ||||     |  |||    |  | | |  ||||  || ||| || ||   |||     |||||||| || |||  |    |  | ||     ||  |||||  |   || ||||||| ||||| || ||||| || ||||||||||||||||| |||||||||||||||||||| |||||||||||||||||||| ||||||||||||
----------------------------------------------------gtttatctctcgacta---atgttccatcatgtt-ttgaaagaaacaatcttc-----atgttcaacaaccataatccagtctttcttatgcaatgctgaacttaatagGCAGATATAGGTCTCTCCATGGGCATCCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATCATCTTGGATGACAATTTTGCATCGGTCGTGAGG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 25
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                     ||  || |   || | ||  ||||   | ||| | ||||  | || ||||  ||        | ||| ||| | ||||            ||||| | |         | | |  |  ||  || | |||||||||||  ||||||| || || || || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| || || |||| |
----------------------------------ctattagaatc--tattg-ttcagacacacattttttggttcaaattaggtaaactagtt---tttgttttcatggttgtt------------tttgtgactct-------atttttgagttt--agGCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 27
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                 |   ||  || |   || | | ||   |   | ||| | ||||  | ||||| |  ||        | ||| ||| | |||             ||||| | |      | |  | || |  ||  || | |||||||||||  ||||||| || || || || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| || || |||| |
---------------------------------tctattagaatc--tattgttctg---acacattttttggttcaaattatgtgaactagtt---tttgttttcatggttgtg------------tttgtgact------ctatttttggagttt--agGCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 24
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                |  |||||| ||   | | ||| | | |   | ||||  |||   | |      |    ||| | ||         |||||| ||   | || | | | | |   | |   || | ||||| |||||| ||||||| || || || || |||||||| || ||||| || ||||| ||||| ||||||||||||||||| || || |||| |
-----------------------------------------------taaaggtttgaac--tatcattccaatgc---agatgtt-tttgttctaatgcagtaaactagcttttat-------tcttttcttgtaattctatacatttttggaat-atagGCCGATATAGGTCTAGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCCGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G44990.1 (Glycine max), 3'ss of exon 26
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                          |  |||| |||  | ||| | || |  ||  || |         ||  ||  || | |     | |  |  |   ||| ||  || |  | || || ||  || ||||||||||||| || ||||| || || ||||| |||||||| || || ||||| |||||||| ||||||||||| || ||||| || || || | |
--------------------------------------------------------aaagttgaaatttaaaattcattat-taaaacctagagtttatcaattatattaatttccttattatagttgatac-agtgctttacta-ttatgtaattt--agGCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 24
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                   |||||| || |    |||| |      | | | |  | |||   || |   |  | ||| | ||         ||| || ||   | || | | | | || ||  |  || | ||||| |||||  ||||||| || || || || |||||||| || ||||| |||||||| ||||| ||||||||||||||||| || || |||| |
--------------------------------------------------aggtttgaac-tatcatttcaatgcaggagtttttgttctaatgtagtaaactaac-tagcttttat-------tctgtttttgtaattctatacattttggaa--tatagGCCGATATAGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 26
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggt-ttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                       |  ||||    ||    |||| || ||    || |   | || ||||||||| |     ||| |||  ||    ||| |   ||  |  |||  || ||            || || ||  || ||||||||||||| || ||||| || || ||||| |||||||| || || ||||| |||||||| ||||||||||| || ||||| || || || | |
--------------------------------------gggtaccaaatccgaaactggaaataaa----ctgggatcaaaaatgtaattttac----catttttttattatagtttatacaatgt--tttactatta------------tgtaattt--agGCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G57110.1 (Arabidopsis thaliana), 3'ss of exon 26
gtttgtggactgtagtctctatgaattt---ttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaa-acttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
      | |  ||| | |     |||||    | || |  | |||| |  ||||    || |    |  ||  |    || | ||| |    ||      | | ||| |  ||       |  |  ||||    || ||  |  |     |  |   | |||||| |||||||||||||  | ||||| ||    ||||| ||||| |||||||||||||| || || || |||||||||||||| ||||| || || || | |
------gtatagtaatttactgaaatttaaactgataatgtcgaaagctacatctaactgaa----agtttcttttggccaagtattttgccta------cgtttttactcagcgagcggatcattatctc--attggtgttaaattttttgagtgtatttgcagGCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 24
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatag-atgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                                  | ||||    | | | |  |  |||   |       ||   |   || | |||     || |||  || ||          || || |   |  || ||||||| ||||| || ||||| ||    |||||||||||||| || ||||||||||| || ||||| ||||||||||||||||| || || || | |
----------------------------------------------------------------gttctctaa---caattctacaggttatgtattatgtgttgtgtgtcatctccaaatctgatttttcttttgtt--------gctttgga--ctatagGCAGATATAGGTCTCTCTATGGGTATATCAGGAACTGAAGTTGCAAAAGAGAGTTCTGACATCATTATTTTGGATGACAATTTTGCTTCAGTAGTAAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 27
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacat---cttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                                      |   | | |   |||||| |  ||  ||| |||       || ||| |||  |||  |   |        |   | ||| ||  | ||        | || |  ||  || |||||||||||||  ||||||| |||   ||||| || ||||| || ||||| ||||| || ||||||||||||||||||||||| || || || | |
-----------------------------------------------------ctcaaatagg---tttctaatatcttttatataaa------aaacatttttttatattttccccgctcttgttcgccttttttttttcttttttttttttggacttt--agGCAGATATTGGTCTTGCAATGGGCATTTCAGGAACAGAGGTTGCAAAAGAGAGCTCTGACATCATTATCTTGGATGACAATTTTGCGTCAGTTGTCAAG

upper sequence: GRMZM2G138195_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 26
gtttgtggactgtagtctctatgaatttttaattactttgaaaccagcatcggtttggacatgaactttctagttcctaatatgtaatttaaacaagcatctttccatagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                                      | |   | | |   |||||||  |    |||| | |    |  | ||   | |          ||   ||   || ||| |    ||| |||  ||                     ||| || ||||||| ||||| || ||||| ||||| |||||||||||||| || || || || || || |||||||||||||| || |||||||| || || | |
--------------------------------------ttatggctgtag-agtttggatgttgtttttcca-tcttcagcaggttcataatgttgtttctttgtaatgattgatcaggttgtatcattttcta---------------------ttgtagGCAGATATAGGTCTCTCTATGGGCATTCAAGGAACTGAAGTTGCAAAAGAAAGCTCAGACATCATTATCTTGGATGATAACTTTGCCTCAGTTGTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagatgttcaagaaacatcttttgttagtactcgacaaactctgaaacttgcagACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGG
                    ttttgtta  TA-rich tract