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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttggacaaattacagttatatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA

Basic information

species Glycine max
transcript GLYMA17G12850.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 16
gtacttggacaaattacagttatatttatttatatttattatgacatttcccaatgcttaatttct-----taatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
    ||||    |||  | || | ||  | ||  | |  || | |  |||  |  | ||| |  ||     | |  |  |||| || |||||  | ||||| | |||||| ||||| ||||||||||| ||||||||||| || ||||| || ||||| ||  ||||||||||  | ||||
---gttgggtgcatttaattttttttcttctaattcttctaagccccttcatagagtttactaactagtgcttactttcagGCATGCGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACGAGACTATTTACAAACAATCACAAAGACA

upper sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
gtacttggacaaattacagttatatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
    ||||    |||  | |  | |||  || |  | |       ||     | |   ||   | ||  | |  |||| ||||||||  | ||||| | |||||| ||||| ||||||||||| ||||||||||| || ||||| || ||||| ||  |||| |||||  | ||||
---gttgggtgcattttaatgtttttttattcttctaagctccttatagtttactaactagcgtttt--tttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA

upper sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 17
gtacttggacaaattacagttatatttatttatatttattatgacatttccca-atgcttaatt--tcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
       |     |  ||  |      ||      |||| | ||||| |  ||  | ||||  |  | |   ||| ||||| || ||||| ||||||||||||||||||||||| || ||||||||||| || ||||| || || ||||||||||||||  ||| ||| ||  | ||||
-------gttggttaccaactgataccatgc---cttatcaagacatctttcatgttcttatatagtgtctgtgtctagGCCTGCGCATCATTGGAACCTAGTTACCAACCTCCAGTGACATTTGTTGTCGTCCAAAAACGGCACCACACTAGACTCTTTGCAAGCAACCACAATGACA

upper sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 18
----------------------gtacttggacaaattaca---gttatatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
                      |  ||||     || | |   || | ||| |  | |  |     |  || ||   | |  |   |||||     | ||||| |||||||||||||||   |  || ||||||||||| || || || ||||| |||||||||||||||||  |  | ||  ||||||||||  |||| |
gttttatcaggttctattacatgagcttgattctatcagaaaggtaaaattcacgtcttctctccgttgcagttataactaatatgtttctac---tctagGCGTGTGCATCTTTGGAAGGAAACTATCAACCTCCGGTGACTTTCGTAGTGGTCCAAAAGCGACATCACACACGGTTGTTTGCAAACAATCACAACGATA

upper sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 18
gtacttggacaaattacagttatatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
                  || | ||| |  | |  |     |  || ||   ||    ||  ||  || | |  |||| |||||||||||||||   |  || ||||||||||| || || || ||||| |||||||||||||||||  |  | ||  ||||||||||  | || |
------------------gtaaaattcacgtcttctctccgttgcagtt---aactaatatgtttctactct--agGCGTGTGCATCTTTGGAAGGAAACTATCAACCTCCGGTGACTTTCGTAGTGGTCCAAAAGCGACATCACACACGGTTGTTTGCAAACAATCACAATGATA

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|193618438|gb|FK572562.1|FK572562
EST:     AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAG                         GCTTGTGCATCTTTGGAACCTAGTTACCAACC
genomic: AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAGgtacttggac ... taatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACC
EST: gi|15285585|gb|BI469476.1|BI469476
EST:     AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAG                         GCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTG
genomic: AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAGgtacttggac ... taatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTG
EST: gi|26269315|gb|CA820378.1|CA820378
EST:     AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAG                         GCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTG
genomic: AAGGACAGTTCTACCAGGTTTTGTTGTATGAGCTTGATGCCATCCGTAAGgtacttggac ... taatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA
                                          tcttaat  putative branch site (score: 3)
                                        tttctt  CT-rich tract
     tatttatatttattat  TA-rich tract