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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctacttccacaagaaaataactggttcagttatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG

Basic information

species Glycine max
transcript GLYMA10G10990.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 11
gtaagtctacttccacaagaaaataactggttcagttatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
||||||  |  | ||        | ||| | |  ||  || || |    ||   |||           | || |  ||| ||    ||   |     |  || |||   ||||||||  | ||||||||||| || ||||| || ||||| |||||||| |||||||| || || |||||  | ||||||||||||||||| || |
gtaagttaatatgcattgt----tgacttgat--gtcctgaaatcttcttgtgctgc--------aatattgttggactgaaaattta---ctgcttattttacagTCAATAGATGGCTTGTACTGTGTTGGCGACAGCTGTTTTCCTGGGCAAGGTGTAATTGCTGTGGCATTTTCAGGGATCATGTGTGCTCATCGAGTTGCAG

upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 11
gtaagt--ctacttccacaagaaaataactggttcagt-tatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
||||||  |      ||        |  |||  |   | ||  | |   ||   | ||| | |  ||      ||   |||| || |  |   |   | ||  || |||   |||||||| ||||||||||||||||| ||||| || || ||||||||||| || |||||||| ||||||||  | ||||| ||||| ||||| ||||
gtaagtatcagaaatcatctccctttggctgacttgatatactggatgtcttcacaatgttatatgat--ttttgg--aactgaaac--tgggcttctcaa-tttacagTCAATAGATGGCCTTTACTGTGTTGGTGACAGCTGTTTTCCCGGACAAGGTGTAATAGCTGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTG

upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G106531_T02 (Zea mays), 3'ss of exon 11
gtaagtctacttccacaagaaaataactggttcagttatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
|||||| |       || |||         ||  | |      |    |||  |||   | |||   |  |||   ||| || |       |     || || |||   |||||||| ||||||||||| ||||| ||||| ||||| || |||||||| || |||||||| ||||||||  | ||||||||||| ||||| ||||
gtaagtat-------caggaatcatctccctttgggtgacttgatgaactgg-atgtcctcagatttcgttga---actgaaacttgggttctc---aatttacagTCAATAGATGGCCTTTACTGTGTCGGTGACAGCTGTTTCCCCGGGCAAGGTGTCATAGCTGTAGCATTCTCAGGGATCATGTGTGCTCACCGAGTTGCTG

upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagtctacttccacaagaaaataactggttcagttatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
||||| |||     | |   | |||  | | | |      |    | |  | | || |  |  | ||   ||  |||  ||||  ||      |  ||  |   |||  ||||||||||| ||||| || || ||||| || || ||||| || || ||||| ||||| ||||| |||||||| |||||||||||||| |||||||
gtaag-ctaaagaaagagatagatagatagat-aacatcaggtttagttagttctggtggtgaatggttttg-ctaatgaaaga-atggttggactaa--taatagGCTATAGATGGTCTATACTGCGTGGGGGATAGTTGTTTTCCTGGCCAGGGAGTTATAGCTGTGGCTTTTTCAGGAGTGATGTGTGCTCATCGGGTAGCTG

upper sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 11
gtaagtctacttccacaagaaaataactggttcagt-tatggaaacactctgctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
|||||| |  | ||| ||  |  ||  ||||| ||| | | |  |   | |  |  | ||||||     | ||| | |       |||  |   ||  ||||| ||||  ||| ||||||| ||||||||||| ||||||||||| || |||||||||||||| |||||||| || ||||| || |||||||| || ||||| ||||
gtaagttt--taccataatcag-tagatggttaagtatttagcgattttttatttggtttttagct--tagtgaatgaactggatcatgtaatgatggaacttgcagGCTATACATGGTCTCTACTGTGTTGGGGATAGCTGCTTTCCAGGACAAGGTGTTATAGCTGTAGCCTTTTCAGGTGTAATGTGTGCACACCGAGTGGCTG

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|31457295|gb|CD399323.1|CD399323
EST:     TGCCGCGCAGAATCCCAAAAGGGTTATTGGGAATGCCATTCAATACCACA                         GGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCTCTGGACAAGGT
genomic: TGCCGCGCAGAATCCCAAAAGGGTTATTGGGAATGCCATTCAATACCACAgtaagtctac ... aaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgcttttagaaggcactgattaactaaagccataaaccaataaaactttcagGGCATAGATGGTCTTTACTGTGTTGGTGATAGCTGCTTCCCTGGACAAGGTGTTATTGCTGTAGCTTTCTCAGGAGTTATGTGTGCTCATCGAGTAGCTG
                        aactaaa  putative branch site (score: 2)
                                                ctttc  putative PPT
                                  ataaaccaataaaa  TA-rich tract