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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTTTGTTCATGGGATCCCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttttaactgatccatacttgggatcaggtttttaaaattttctttatcatttaatcacaactatatttttctttatacaagtagatttttaatgtttatgatttttaatttgttcag

Basic information

species Glycine max
transcript GLYMA16G17580.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 5'ss of exon 11
TCACTTTGTTCATGGGATCCCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtctttt---aactgatccat--acttgggatcaggtttttaaaattttctttatcatttaatcacaactatatttttctttatacaagtagatttttaat--gtttatgatttttaatttgtt-cag
||||||||||||||||||||||||||||| ||||||||    ||||||||||| ||||||||||| ||||| |   ||||   || | || ||   |  | |  || | | |    ||| | | || |    |       | | ||   |    |  | |   || | ||| |    ||||   | ||   |||||  |||
TCACTTTGTTCATGGGATCCCTGCAAGAGGCCAACAGCCTTGGAGGCTCTTCAGCATCCTTTCTTCCAGgtattctttttgggaatttattcaatgatatagtgtccgatcta-gcaatatgcattgttgcctttctctgagtttaggatgtggtg-atagccagttatttgactaatttacactgttctttttgtggcag
















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|208205518|gb|GE004963.1|GE004963
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193688679|gb|FK628748.1|FK628748
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|207751715|gb|GD723624.1|GD723624
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTCTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193406247|gb|FK370586.1|FK370586
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCC-TTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193667314|gb|FK613500.1|FK613500
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193521415|gb|FK478972.1|FK478972
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193479622|gb|FK448145.1|FK448145
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|207683796|gb|GD665099.1|GD665099
EST:     AGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCTTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: AGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|208062337|gb|GD857685.1|GD857685
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCG
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCG
EST: gi|207716323|gb|GD698931.1|GD698931
EST:     AGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCTTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: AGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|208091432|gb|GD885893.1|GD885893
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|208141387|gb|GD936135.1|GD936135
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193474066|gb|FK440147.1|FK440147
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193508916|gb|FK465512.1|FK465512
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCA
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCA
EST: gi|208281582|gb|GE078098.1|GE078098
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTACGACAAACCAGAGCTGTAA
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTT-CG-CA--CCAGAGCTGTAA
EST: gi|193429244|gb|FK394934.1|FK394934
EST:     CCTGCAAGAGACCAACAGCTGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193710657|gb|FK646869.1|FK646869
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCTGTAACCAGAACT
EST: gi|193698058|gb|FK635769.1|FK635769
EST:     CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAG                         AGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCT
genomic: CCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttt ... atttgttcagAGTTGCTTTTACATCCCTCCATCCCTTCGCACCAGAGCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACTTTGTTCATGGGATCCCTGCAAGAGACCAACAGCAGCAGAGGCTCTTCAACATCCTTTCTTTCAGgtttgtcttttaactgatccatacttgggatcaggtttttaaaattttctttatcatttaatcacaactatatttttctttatacaagtagatttttaatgtttatgatttttaatttgttcag

- - - - - - - - - - - GCAAGA
- - - - - - - - - - - - AAGAGA