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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctctcgttaacctaagtgcataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG

Basic information

species Glycine max
transcript GLYMA08G19320.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G103059_T01 (Zea mays), 3'ss of exon 2
-------------------------------------------------------------------gtaacctctcgttaacctaagtgcatag-gaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                   | ||  |||    |  |||| ||| |   ||   |  | |||      |||||||     || ||||  ||  |  | |||| ||||||||||||||||||||||||| | |||| |||||| | ||||||||   ||| || ||||| || |||
gtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctt-tcagGCCAAGACCACCAAGAAGATTGTTCTGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCACAGCACGCCATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G125527_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------------------------gtaacctctcgttaacctaagtgcatagg-aattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                     ||  |||    |  |||| ||| |    | | |  | | |      |||||||     || ||||| ||  |  | |||| ||||||||||||||||||||||||| | |||| |||||| | ||||||||   ||| || ||||| || |||
gtaatgcagcatatctatttgattgtacttatacctttgtctgttttgatgctagcatgaatgtctgaaaatatctgcgaattctaaatgcctgttcagtgattaatgtgggatatgacaaatgagattgtatttatacctt-tcagGCCAAGACCACCAAGAAGATTGTTCTGAAGCTGCAGTGCCAGAGCTGCAAGCACTACTCACAGCACGCCATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14320.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------------------------gtaacctctcgttaacctaagtgc-ataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                     | |    |||  | |  || ||   |||||||| |   |||  ||           |   |||   |||   | ||  |||||||||| || ||||||||||| |||||| | ||||||||  | ||||||||| |||| |||| | | ||||||
gtatactcgcttttccttgtcttgatctctaattactgtcttctatgtgagaaccaatttaggatttcagaattgactctgtgaaatatgtcttataggaatgatttgttaattggaccttgctcattatttgtctttctttggaacagGCTAAGACAACTAAGAAGATTGTGCTGAGGCTTCAATGCCAAAGCTGCAAGCATTTCTCGCAACGCCCGATTAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0064g00880.t01 (Vitis vinifera), 3'ss of exon 2
--------------------gtaacctctcgttaacctaagtgcatagg-aattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                     |     ||  | ||  ||| |    ||  ||||  |  |  || | |  | |   ||  |||   || |   | |  |||||||||||||||||||||||||||||||| | || |||||||||||||| || || ||||| ||| | || |||
ggttaactgtatccttagaattgttggcttctcaaattaactatcaagccaattgaggctaattcttcatagattgaccatttcccttgtgccttaacagGCTAAGACCACCAAGAAGATTGTTCTGAGGCTCCAGTGCCAGGGTTGCAAACACGTATCCCAGCACCCAATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g02090.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------------------------gtaacctctcgttaaccta-agtgcataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                             |||   | |    || ||  |||  |     || |||     |   | |  ||   |    | | ||| | |   |  |||| ||||| |||||||||||||| |||||| | ||||||||||||||||| ||||| || |||||| | || |||
gtaaagaccctttctctggcattctcctcttccttgcaattatcaattgtttcatgtttcttataatgagagagcttgtaggatttttcaaatctgtagtagaagcttataagggcaaatccccatagcattgatccatctttttctca--aaccagGCCAAGACAACCAAGAAGATTGTGCTGAGGCTTCAATGCCAGGGTTGCAAACATGTATCGCAACACCCAATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g02080.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------gtaacc-tctcgttaacctaagtg--------cataggaattaggagtt----tttttcctgacaaa-------aacattt--ttatttttaat---------tgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                      ||||| | |  ||||  |  |||        |  ||  |||   | ||    ||||   || ||||       ||| |||  ||  |||| |          | || |||| || |||||||||||||| || |||||||||||||||||||| ||||| || || ||||| ||  | || |||
gtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttttctcagagattgctatttatatttttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcagGCAAAAACCACCAAGAAGATAGTACTGAGGTTGCAATGCCAGGGCTGCAAACACGTATCCCAGCATCCAATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S22_326V6.2 (Physcomitrella patens), 3'ss of exon 3
gtaacctctcgttaacctaagtgcataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                  |  | |   |  |||    ||| ||||| |  |     | ||||||||||  |    | |||||||||| |||||||||||||| |||||||| || ||||||| ||||||||| ||  | |||||  |||| |||
----------------tcatcttctctgcgattttt-gttgttttcttttcttcttcttttttatttt--acc--tcaggctaagactaccaagaagattgtactgaggttacagtgccagGCTTGCAAGCACGTGACACAACATCCTATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S22_326V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------gtaacctctcgttaacctaagtgcataggaattaggagtttttttcctgacaaaaacatttttatttttaattga--ttagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                     |||             |||||| |||      |  || |||| ||  |  |     | | ||  |||||| || |  | |||||||||| |||||||||||||| |||||||| || ||||||| ||||||||| ||  | |||||  |||| |||
tcgtattgtcaatgatttctggtagtaaaaaacaggactaagt-catcttctctgcgatttttgttgttttctttt-cttcttcttttttattttacctcagGCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S2_415V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------gtaacctctcgttaacctaagtgcataggaattaggagtt----tttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                     ||  |   |  ||  |   |  ||  | | || |  ||    | | |  | ||  |   || ||   ||  |||   | |||||||||| |||||||||||||| ||||||||||| || |||| ||||||||| ||  | |||||  | ||||||
tcctggagtttcggggtttcaaatgtggggcaaatgttgttatatttggactatgctttcgtgtatctttttaccgatttatgttgtcttggaatc--tcagGCTAAGACTACCAAGAAGATTGTGCTGAGGTTGCAGTGTCAGGCTTGCAAGCACGTGACACAACATCCCATTAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S115_63V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------gtaacctctcgttaacctaagtgcataggaattaggagtttt-tttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                            |||   ||  |||||         |||  |||     | ||  ||  |||| |          | | ||    |   ||||||||||||| ||||||||||| || ||||||||||||||||  |||||||| ||  | |||||  |||| |||
gttagcttaactctgttgtatgtcttggatcaatatgttgtgactcctttcagtggctgcctaaatctcatgcagttaaatact--ttaactatttaatttagtgattgtatatgttgctttttgactatgctcaccagaatcttgtgcgtgcagGCTAAGACCACGAAGAAGATTGTGCTTAGGTTGCAATGCCAGGCCTGCAAGCACGTGACACAACATCCTATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S74_73V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------gtaacctctcgttaacctaagtgcataggaattaggagtttttttc-ctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                      |||| |   ||  | |     |   || ||     |    |  | |||| |||  | | |||  | ||   |  | |||| |||||||| ||||||||||| || ||||||||||| |||| ||||||||||||  | |||||  | || |||
gtgatttcataacaaatttgagaaccccctcttcgctttgtctcgctggtatcgatggcacgtggcactgagaaagtcctgtttgatattttgttctcagGCCAAGACCACAAAGAAGATTGTGCTTAGGTTGCAATGTCAGGCTTGCAAGCATGTGACTCAACATCCCATCAAG

upper sequence: GLYMA08G19320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S6_198V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------------------------------------------------------------------------gtaacctctcgttaacctaagtgcataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
                                                                                           |  |||||| || || |   |  | |  |      |    || |   | |      | | |    || |     ||||||||||||| ||||||||||| || |||||||| ||||||| ||||||||||||  | || ||| |||| |||
gttagctaaacccagtcgtgtatttcgaggttttatgtcactattctttagagtcatctggcttgtacgtgatttgttgaatcatgttcatatgtctcgtcaatctcatatctcatgtgtatattatggcgtttcgagctatgctcatgtgaaccgtattattgcagGCTAAGACCACAAAGAAGATTGTGCTCAGGTTGCAGTGCCAGGCTTGCAAGCATGTGACACAGCACCCTATCAAG

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|6666733|gb|AW278192.1|AW278192
EST:     GCAAACAATCTGGTTATGGCGGACAAACTAAGCCCGTCTTCCACAAGAAG                         GCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAG
genomic: GCAAACAATCTGGTTATGGCGGACAAACTAAGCCCGTCTTCCACAAGAAGgtaacctctc ... aattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataggaattaggagtttttttcctgacaaaaacatttttatttttaattgattagGCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAG
              tttttttcctgacaaa  TA-rich tract