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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttttagcagttgcgaccagaaagactgacagttttttctatcgtcttttgcatgatatatacatacgtacatacatacatagatatatacatacatacatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatgtggaccatttttaggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG

Basic information

species Glycine max
transcript GLYMA19G36410.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36410.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g48020.1 (Oryza sativa), 3'ss of exon 4
gtaacttttagcagttgcgaccagaaagactgacagttttttctatcgtcttttgcatgatatat-acatacgtacatacatacatagatatatacatacatacatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatgtggaccatttttaggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                                                         | |||||| |  | |    | ||     |     | | |||   |   ||    |  | || | || |     ||   | |||  |   | ||   |  || |   | |  ||||| ||||||||||||| || |  |||||  |||| ||| ||||||||||||||  |||||||||||||
--------------------------------------------------------gtaatatattaattccccgaacacgcttttcttccttttcatttttggctactgctggaagtgggatttc---ttatgtaaggtgacctgtgtatggaattgaaat-tctgcagGATGAAGGTTTGGATATTATCGGTGAAGGGCTGGAAACTCTGAAAAACATGGCATCTGATATGAATGAG

upper sequence: GLYMA19G36410.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G057251_T01 (Zea mays), 3'ss of exon 4
gtaacttttagcagttgcgaccagaaagactgacagttttttctatcgtcttttgcatgatatatacatacgtacatacatacatagatatatacatacatacatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatgtggaccatttttaggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                               |  | ||   |    |   ||   | |      | ||||    | | | ||| | |||  ||     |  | || | |  ||||| || |  ||||  | | ||         ||  |||| ||            ||||| ||||||||||  | ||||  |||||| |||| ||||||||||||||||||  |||||||||||||
-------------------------------gtaaattcactgagccactttcctcctttctgtttcatattctcttgc-tac-tggatgcatttcctctca-atttgt-catatggtgtaacttgtctttggca---------ataaaattgtgc-----------agGATGAAGGTTTGGACGTTATTGGTGAAGGACTGGAAACTTTGAAAAACATGGCATCTGATATGAATGAG

upper sequence: GLYMA19G36410.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g02130.t01 (Vitis vinifera), 3'ss of exon 4
gtaacttttagcagttgcgaccagaaagactgacagttttttctatcgtcttttgcatgatatatacatacgtacatacatacatagatatatacatacatacatatatatatatgttgaatgttgttctagacatggtttcaaatctaattatgtggaccattttt--aggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                                           ||      | || ||  ||| ||| ||  ||     | | ||  |    |   ||    || |  |  || | |||  | |  |||      ||  |   | | ||||  | |  | ||||| |  |||| |||||||||||| |||| |||||||| ||||| || |||||||||||||| |||||||||||||||
------------------------------------------gtaagtctatgtggattgtat-tacttaattatcagaaaagatgcactattttctattatcagagctgcatcttttggctatgtttcc-----tgtatcacattataatcttctttaacatttgtgcagGACCAAGGTTTGGATGTGATAGCAGAAGGTTTGGACACATTGAAAAACATGGCCCATGATATGAATGAG

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|254329339|gb|GR833711.1|GR833711
EST:     AAGTCGATTCAGGCAAGAGTACGAAATGCGTAAAATGAAACAGGATCAA
genomic: AAGTCGATTCAGGCAAGAGTACGAAATGCGTAAAATGAAACAGG--CAA
EST: gi|254347019|gb|GR856689.1|GR856689
EST:     ATGCGTAAAATGAAACAGGATCAAG                         GTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
genomic: ATGCGTAAAATGAAACAGG--CAA-gtaactttta ... taggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
EST: gi|254347019|gb|GR856689.1|GR856689
EST:     ATGCGTAAAATGAAACAGGATCAAG                         GTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
genomic: ATGCGTAAAATGAAACAGG--CAA-gtaactttta ... taggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
EST: gi|254344182|gb|GR855267.1|GR855267
EST:     ATGCGTAAAATGAAACAGGATCAAG                         GTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
genomic: ATGCGTAAAATGAAACAGG--CAA-gtaactttta ... taggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
EST: gi|254344182|gb|GR855267.1|GR855267
EST:     ATGCGTAAAATGAAACAGGATCAAG                         GTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
genomic: ATGCGTAAAATGAAACAGG--CAA-gtaactttta ... taggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACAT
EST: gi|21601172|gb|BQ611503.1|BQ611503
EST:     AAGTCGATTCAGGCAAGAGTACGAAATGCGTAAAATGAAACAGGATCAA
genomic: AAGTCGATTCAGGCAAGAGTACGAAATGCGTAAAATGAAACAGG--CAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgttctagacatggtttcaaatctaattatgtggaccatttttaggatcaagGTTTGGATATGATTGCAGAAGGATTGGATACTTTGAAAAACATGGCACATGATATGAATGAG
                       atctaat  putative branch site (score: 3)
                                      ccattttt  putative PPT
                 tttcaaatctaattat  TA-rich tract