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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaaattgtctttggaaaatgataatttcagcttctatcatcagttggtctttattctttttcttcttgttagtcttagttcttattttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG

Basic information

species Glycine max
transcript GLYMA12G06990.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 3
gttggtaaattgtctttggaaaatgataatttcagcttctatcat-cagttggtctttattctttttcttcttg-----ttagtcttagttcttatttt--attggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
                               ||||  |  ||||| |  ||| |  || |      || | |       | |||   ||   |||||||  | | ||||||||||  | |||||||| ||||| || ||||| ||||| |||| |||||| ||| ||||   ||| ||||||||||| ||||| ||||
------------------------------gtcagtgttcatcatgccattgattcttctagcgcctcatgtgaaaaactcagttacagaatttatttttgaattgcagGATTTTGTTAACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG

upper sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 6
gttggtaaattgtctttggaaaatgataatttcagcttctatcat-cagttggtctttattctttttcttcttg-----ttagtcttagttcttatttt-attggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
                               ||||  |  ||||| |  ||| |  ||   |    || | |       | |||   ||   ||||||| | | ||||||||||  | |||||||||||||| || ||||| ||||| |||| |||||| ||| | ||   ||| ||||||||||| ||||| ||||
------------------------------gtcagtgttcatcatgctattgattcttccaccgcctcatgtgaaaaactcagttacagaatttattttgaattgcagGATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG

upper sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 5
gttggtaaattgtctttggaaaatgataatttcagcttctatcat-cagttggtctttattctttttcttcttg-----ttagtcttagttcttatttt--attggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
                               |||   |  ||||| |  ||| |  ||        || | |       | | |   ||   |||||||  | | ||||||||||  | |||||||| ||||| || ||||| ||||| |||| |||||| ||| ||||   ||| ||||||||||| ||||| ||||
------------------------------gtcattgttcatcatgccattgattcttccagcgcctcatgtgaaaaactcaattacagaatttatttttgaattgcagGATTTTGTTGACATCAACCTCTGAAGTTTATGGTGATCCACTTGAGCATCCTCAAACTGAGGCCTACTGGGGCAATGTTAACCCGATTG

upper sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggtaaattgtctttggaaaatgataatttcagcttctatcatcagttggtctttattctttttcttcttgttagtcttagttcttattttattgg-cagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
              |||| |||||||||   ||   || ||| |     |    | | ||  | |||  |||  |   || | ||  | || ||  || ||||||||| || || ||||| || ||||||||||| ||||||||  | |||||||| ||||| ||||||||||| ||||| ||||| ||||
-------------gtttgcaaaatgataccctc--tttttattacttact----tctgttgatcttcgcctttgtga-ctaacttactcttctaccggacagGATTTTGCTTACCTCAACCTCGGAGGTATATGGAGATCCTCTCATTCATCCCCAGCCTGAGAGCTATTGGGGAAATGTCAACCCAATTG

upper sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 6
gttggtaaattgtctttggaaaatgataatttcagcttctatcatcagttggtctttattctttttcttcttgttagtcttagttcttattttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
              ||||| |  |||    ||||  || |  | | |    |  |      ||| ||   || |||   |  |||  | ||    |  |||||| || || |||||||| || || |||||||| |||||||||| |||||||||| |||| ||||||||||| ||||| ||||| || |
-------------gtttgggatttga---cttcattttattcctttaaccaggatcataaatttctcaatttattaaattatgttaatgtt----taacagGATATTGCTTACATCAACTTCAGAAGTATATGGAGATCCTCTTGAGCATCCCCAAACTGAGAGCTATTGGGGAAATGTTAACCCAATAG

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|298196598|gb|HO041341.1|HO041341
EST:     GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAG                         GATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAGgttggtaaat ... ttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|16277140|gb|BI942224.1|BI942224
EST:     GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAG                         GATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAGgttggtaaat ... ttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|298196896|gb|HO041639.1|HO041639
EST:     GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAG                         GATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGTACACTGAACATGCTTGGGCTTGCCAAGCGAGTTGGGGCAAGgttggtaaat ... ttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttggtctttattctttttcttcttgttagtcttagttcttattttattggcagGATTTTACTCACATCAACATCTGAGGTATATGGGGATCCTCTTGTGCATCCCCAACCTGAAAGCTATTGGGGCAATGTGAACCCTATTG
                                     ttcttatttt  CT-rich tract
                                 ttagttcttattttat  TA-rich tract