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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcactgatgtatcattatcatttcatttgaaaccgtgtttcacatgatagagtagttttaccaacagtatggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG

Basic information

species Glycine max
transcript GLYMA02G34640.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G827205_T02 (Zea mays), 3'ss of exon 6
gtattcactg-atgtatcattatcatttcatttgaaaccgtgtttcacatgatagagtagtttt----accaacagtatggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG
||||   |     | | ||   |   |   ||  || | | |||| |  |       |  || |    |  || |  |||       ||    |||||||| ||    ||||||||||||||||| || || || |||||||| ||| || |||||||||| || ||||| || ||||| ||
gtatgggccatgagaaacacactggatctgttcaaatcagagttttatttacctttttttttctttggagaaaaatcatgacacctatgcatcagGTATCCTTCAATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAATGGCTTTGGCTGTGATAGGAATTTTGGGACATTTCAG

upper sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G137707_T01 (Zea mays), 3'ss of exon 6
------gtattcactgatgtatcattatcatttcatttgaaaccgtgtttcacatgatagagtagttttaccaacagtatggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG
      |  || |   |   |  |      ||| | |   |    |||||  | |  |    | |    |  |  |  |||       ||    |||||||||||    ||||||||||||||||| || || || |||||||| ||| || |||||||||| || ||||| || ||||| ||
gtatgggccttgagaaacacactagatctgtttaaatcagagttttgtttacctttttttctttggaaaaaaataatcatgacacctatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAATGGCTTTGGCTGTGATAGGAATTTTGGGACATTTCAG

upper sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G827205_T01 (Zea mays), 3'ss of exon 6
gtattcactg-atgtatcattatcatttcatttgaaaccgtgtttcacatgatagagtagtttt----accaacagtatggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG-------------
||||   |     | | ||   |   |   ||  || | | |||| |  |       |  || |    |  || |  |||       ||    |||||||| ||    ||||||||||||||||| || || || |||||||| ||| || |||||||||| || ||||| || ||||| ||             
gtatgggccatgagaaacacactggatctgttcaaatcagagttttatttacctttttttttctttggagaaaaatcatgacacctatgcatcagGTATCCTTCAATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAATGGCTTTGGCTGTGATAGGAATTTTGGGACATTTCAGGTAAACATCCTTA

upper sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 6
----gtattcactgatgtatcattatcatttcatttgaaaccgtgtttcacatg-atagagtagttttaccaacagt---------atggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG
    ||| |  |    |  || | |   |||| ||| |||   |||||| | || |||    ||| || | ||||||          |    | | | ||| |||||||| ||||||||||||||||| || || || || || |||||||| ||||| ||||||||  |||| |||||||||||||||||
agaagtacttccaagagagtcctaa--gtttc-tttaaaatt-tgtttctcctgcataatcaagtcttgctaacagttcatttgttgtatcttgcatattccagGTATCCTTCTTCAGTTTTTGTTGGAGACACTTACACGTATTTTGCTGGAATGACAATGGCTGTAGTTGGCATTTTAGGCCATTTTAG

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|192305577|gb|FG998333.1|FG998333
EST:     TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTG                         GTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT
genomic: TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTGgtattcactg ... cttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT
EST: gi|57575186|gb|CX548161.1|CX548161
EST:     TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTG                         GTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT
genomic: TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTGgtattcactg ... cttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT
EST: gi|254338362|gb|GR845612.1|GR845612
EST:     TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTG                         GTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT
genomic: TTAGCTCAGCCCTTGCTAGCTACCTCTTTGGCTTTACTTTCTTACAACTGgtattcactg ... cttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accgtgtttcacatgatagagtagttttaccaacagtatggtcttcttgttctagGTATCCCTCTTCAGTTTTTGTTGGTGATACATATACATACTTTGCTGGGATGACTATGGCTGTGATTGGTATTTTAGGCCATTTTAG
                                         tcttcttgttct  CT-rich tract
                     tagtttta  TA-rich tract