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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaattcagtttctcttactcttgtccattatccaaaacccttttgattttagcatcaccctttctttttggttcaaaaaacagaagtcatcaagagtaactcttttttttttttttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAATTGAACTTTAAACCTAGTATGACACTTCGTTTTATTGTACGCAATCTGT

Basic information

species Glycine max
transcript GLYMA16G06750.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06750.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 3
gtgaaattcagtttctcttactcttgtccattatccaaaacccttttgattttagcatcaccctttctttttggtt-caaaaaacagaagtcatcaagagtaactcttttttttttttttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAATTGAACTTTAAACCTAGTATGACACTTCGTTTTATTGTACGCAATCTGT
                                               |       ||||  | ||  |  ||  || | |   ||||        || | ||| ||||||   |          | |||| || || |||||||||||||||||||| || || ||| ||||||||||  ||  |||    ||  || ||||||| ||| | ||    || |     |
-----------------------------------------------gtacgcgacatctactttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgat----------gcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT

upper sequence: GLYMA16G06750.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0171g00400.t01 (Vitis vinifera), 3'ss of exon 4
gtgaaattcagtttctcttactcttgtccattatccaaaacccttttgattttagcatcaccctttctttttggttcaaaaaacagaagtcatcaagagtaactcttttttttttttttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAATTGAACTTTAAACCTAGTATGACACTTCGTTTTATTGTACGCAATCTGT
                               | ||| ||||||   | |||      ||  |     | |||  | |||   |  |                     |||| | |   ||  || |||||||||| |||||||||||||| ||||| ||||||||  |||| |||||| || | || ||||| || |  || ||||| || ||    || ||  | |
---------------------------gtgctgtcccaaacccccctaattca---gtcgtctcaaatctttcctccaactcatgg---------------------ttttgtgtgccttcatgcagATTTATGCTATGCCAGTGTTTGATATGATAGAAACTGTCTTGGTAAAGAAACTGCATTTCAAACCCAGCACTACCCTTCGGTTCATCTCTCGGAACATAT
















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|254330084|gb|GR839637.1|GR839637
EST:     TTGCAATGGCTAATATGTTTG-TGTGATCCATGTTA-TGGAAGTTATCAG                         ATTTATGCAATGCCAGTG-TTGACATGATTGAAACTGTGATGGTGAAGAAA
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
EST: gi|105632108|gb|DW246312.1|DW246312
EST:     TTGCAATGGCTAATATGTTTGTGGTGATCCATGTTATTGGAAGTTATCAG                         ATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAA
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAA
EST: gi|254330083|gb|GR839636.1|GR839636
EST:     TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAG                         ATTTATGCAATGCCAGTGTTTGACATGATTGAA-CTGTGATGGTGAAGAAA
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
EST: gi|254343288|gb|GR856992.1|GR856992
EST:     TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAG                         ATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
EST: gi|254343289|gb|GR856993.1|GR856993
EST:     TTGCAATGGCTAATATG-TTGTTGTGATCCATGTTATTGGAAGTTATCAG                         ATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA
EST: gi|105633568|gb|DW246931.1|DW246931
EST:     TTGCAATGGCTAATATGTTTGTGGTGATCCATGTTATTGGAAGTTATCAG                         ATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAG
genomic: TTGCAATGGCTAATATGTTTGTTGTGATCCATGTTATTGGAAGTTATCAGgtgaaattca ... ttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttcaaaaaacagaagtcatcaagagtaactcttttttttttttttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAATTGAACTTTAAACCTAGTATGACACTTCGTTTTATTGTACGCAATCTGT
                        gagtaac  putative branch site (score: 2)
                           taactctttttttttt  CT-rich tract
                      aagagtaactcttttt  TA-rich tract