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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG

Basic information

species Glycine max
transcript GLYMA15G02640.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 2
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
                     | ||||          | |  |   ||   |  |||||| |||||| |  |  |  | || | | |    |   ||     | ||||||   |   |     | || ||  | |||||    || ||  | ||||  ||||||||||| ||||||||||| || || |||||||||||||| || |||
---------------------gtaagtacc-----acacactatctaagttatgtaggtttcttgtt-taaatctcttgttctcatagaagtcaattt----atatgcagAGCGCCAGTC---GGAGTGAACTTGAGAGACAAGATTACCCGATTGCCAGGCATCCTGAATTCCGTTACAAGACTGAATTTCAGAGTCATGAACCTGAG

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttg---ttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
                                       ||     | || | ||| ||||  |    ||     |||||   |         ||  |  || |   |||  |||   ||  |   || | ||  | ||||||   || |||  | ||  |||||||||||||||||||||||| || || |||||||||||||| || |||
-------------------------------------gtaagtgctacactatataagttctataatctttcttgcttaaatctcgtgtgcccatagtg-ctaatgtatgt-gcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 2
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
                     | | || | ||    |  | |  |||  |   | |  ||  |   | || | | |  || |  | |  ||| || | |    | |  ||||||     || ||||  |||   ||||     || ||||||||  | |||||||||||||| || |||||||| |||||||| || ||||||||||||
---------------------gtatgtatattgaactgtacaccaaaggctgca-aactttttccctctgtattcag-atggctaaacatattttgttttccccctttagCATGCC---TCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 4
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
||| | | | |||   | | || ||  |||||| ||    | |    |     ||   ||  | |||||    |     ||||  ||||        |||     | |||    ||||| | ||||| ||  | ||       || ||| | | ||  |||||||| ||||| ||||| ||||||||||||||||||||||| || |||
gtatgtccacttt--acct-tgtaatcgtttttctg----atatgggatttggatcattt--tggttatatgtt----gttgttgcatg--------ctgtggattacagAGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTAT-CCACTG--AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAG

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
    || |   |||| ||| ||||||  || ||  |     ||||||    |  |        ||| | |||||     ||| || |||| |  ||||          ||||||| || || || | |||| | |||  || ||| ||  |  |   ||||||||||||||| || || |||||||| |||||||||||||| ||||||
--gtgagttcctttttcttctgcaagatttgtttcg-----aaaaaatgttatgtg------ctgtaacgcactc----ttgcaaaatgt-tactttc----------agCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGT---TAGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 2
gtaagactattttttgcttatgcaagtg-tttttgtgtaaaaaaaaaaaaccaaataggtt-ccttgttatgcac-------ttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
    |    || |||  | |  | | || | |||   |     |   ||||   ||||||| ||||  | | |         | |||||| | | || | | |   ||| ||  || ||||||| ||||||||||||||| | ||||||||||||||  | |||   |||||||| || || ||||| ||||| ||||||||||| ||||| || |||
----gtgcgttcttttttaacactactggtctttagtttctgtatccaaacttgataggttgccttactgttcttgtttctttcaatattatgatatctttatacactgtaatgtgtagCATGGAGGATCAAGAAGGGATCTTGAGAGGATGGACTACCCAATT---AGGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG

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|14258666|gb|BG881574.1|BG881574
EST:     GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGG
genomic: GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactat ... aaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGG
EST: gi|208253993|gb|GE052541.1|GE052541
EST:     GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGG
genomic: GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactat ... aaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGG
EST: gi|24205994|gb|BU965247.1|BU965247
EST:     GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGG
genomic: GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactat ... aaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGG
EST: gi|207825949|gb|GD799746.1|GD799746
EST:     GATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATAACAAAAAGAT                         CATG-TGGATC
genomic: GATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATA-CAAAA-GATgtaagactat ... aaacatgcagCATGGTGGATC
EST: gi|207704778|gb|GD685159.1|GD685159
EST:     GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGAT                         CATG-TGGATC
genomic: GTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAAAGATgtaagactat ... aaacatgcagCATGGTGGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG
                        ttgtaac  putative branch site (score: 2)
                  ttaatattgtaacat  TA-rich tract