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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT

Basic information

species Glycine max
transcript GLYMA05G32340.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g73450.1 (Oryza sativa), 3'ss of exon 4
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgct-caaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                                 |||  ||   |  | ||    ||||     |  | | |||   | || |||   | ||   |  |   | ||    |||     || ||  |   ||  |  |  || |||||||| ||||| |||||||| ||||||||||||||||||||||| || ||||| || || || || || || ||||||||||||||||| || |||
-------------------------------------------------------------------------------tgttttaaaaaaaagaaga----catcattcctgttataagtgatttcataatttctcagcataaaatagttcaccacttt-----atcttactcttttcctaattcagCATGTTGGCTACTGTGATGAATGCCATATTTCTTCAAGCAACAATGGAGAGCATTGGAATACCAACCCGTGTCCAAACTGCATTTCGTATGTCAGAAGTT

upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G149535_T01 (Zea mays), 3'ss of exon 4
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                  |     ||    | |  |  ||   | | |||   |||     | || |||  ||      |||      | |  ||||         | | |||  ||  ||   ||||| | |       |||||||||||||| |||||||||||||||||||||||||||||||| || || || || || || || || || ||||| || |||||||| || |||
----------------------------------------------------------------gcgtcgcctaggcgacaccttaaaaacactgtgacaaacagtt-ttgtagttttggtaatcttaaa------acaacagta---------catcttatgaagctttcctaattcagC-------ATGTTGGCCACTGTGATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATCGGAATACCGACCCGTGTCCAAACTGCCTTCCGTATGTCAGAAGTT

upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G139462_T04 (Zea mays), 3'ss of exon 3
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                                 | | |  || ||| ||     ||| |     |     |||||   |   |   |   |  |  |  | |    | | ||| ||   ||   ||||| | |       ||| |||||||||| ||||||||||||||||||||||| || ||||| || || || || || || || || |||||||| || |||||||| || |||
-------------------------------------------------------------------------------actctactgttcattctggaaggcattcttgtgataaccagttgtatagttttggtactattaa-aacaacagtacatcttattatgctttcctaattcagC-------ATGCTGGCCACTGTGATGAATGCTATATTTCTTCAAGCGACGATGGAGAGCATCGGAATACCGACCCGTGTCCAGACTGCCTTCCGTATGTCAGAAGTT

upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G18680.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctc-aaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                      || | | ||    |     | |  | ||||  | ||  || ||||  |||  | || | |||           | ||  |   ||  | | | |  |||   | || ||      ||||||| |||| ||||| |||||||| |||||||||||||| |||||||| ||||||||||| || || || || || ||||| || || ||||| || || 
----------------------------------------------------------------------gtaatcatacgcctttgtgtcaa-aggatcttcttcttct-tactcggagaagatccagaattttcctctactggaggtttttgg--tctcattggtttatctgaaattgg---atagGATGCTGGCAACTGTGATGAATGCAATATTTCTTCAAGCGACAATGGAGAGTATTGGCATCCCAACCCGTGTTCAAACTGCTTTCCGCATGTCGGAAGTC

upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 5
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatccacatccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                             | ||||  |   || | |||    ||| |   | |   |    || || ||| |   | |  | | |       ||    || |       ||||  |   ||  | |||||||||||| |||||||||||||||||||||||||||||||||||||| || |||||||| || ||||| || ||||||||||| || |||||||| |||
--------------------------------------------------------------------------ttcttgattcgcgtgttgt-atggaggacacctgttgtgtatct--ttccttaaattatgtaactgtaatttggggtagaaccttga-------tgttgga---attttttagGATGTTGGCTACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAGAGCATTGGCATCCCAACTCGTGTCCAGACTGCATTCCGAATGTCTGAAGTT

upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S241_40V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgattcccttaatctcttaatttttatcttgaaggttaagtcagggcactgatcgctgatgtgctggttgttaacttagatttccaatttattatgatcca--catccactatactttgagttgctcaaaatgcatgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                                                                 | | | ||  || |||||     |||    ||  |||| || ||    |||| ||  | | |||   ||     | |   | |||  | ||       |  |    || ||| |||||||||||||||| |||||||||||||| ||  ||||||||||||||||| | || || || ||||||||||| ||  | |||  |||||||
---------------------------------------------------------------------------------tatgcgat--atcatgattggatcatatggtacgcttttagatg--tgaaattcac-acacaagcgctaatt--gttcaatgctacatctggcgtggatg-ctggcagCATGATGGCCACTGTTATGAACGCTATATTTCTTCAGGCCTCAATGGAAAGTATTGGCGTGCCCACACGTGTGCAGACTGCCTTCAGAATGAATGAGGTT

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|9902835|gb|BE611803.1|BE611803
EST:     TCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGG                         GATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAG
genomic: TCCTGGGCTGGAAGTAGTGGACTAGACCGCTCATCTGCGGATTATATTGGgtgattccct ... tatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgagagaagtagtatccaggctttttactaattttgtttaatttatcctctagGATGTTGGCCACTGTTATGAATGCTATATTTCTTCAAGCAACAATGGAAAGTATTGGCATTCCTACTCGGGTGCAGACTGCATTTCGTATGTCTGAGGTT
                                           tttatcctct  CT-rich tract
                       tttttactaattttgt  TA-rich tract