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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaaccttctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC

Basic information

species Glycine max
transcript GLYMA05G10050.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g55560.2 (Oryza sativa), 3'ss of exon 4
gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaaccttctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
                   |   |    ||  | | ||| |       |||| ||    ||   | ||    | | |  ||| |  || ||    ||||||| |||| || || || || || || |||||||||||||| |||||||||||||||||||||||   | |||||||||| || || |||||||| || || |
-----------------gtaagttctcatgtgccaaattgagg--tgatattatgcgctagttattaatgtatccaatgatcatctggatac---tttgcagATTGAAGATCGATTCTACATATACCTGGAATATGTTCACCCTGGTTCAATTAATAAATATGTTAATCAACATTGTGGAGCAATGACAGAATCAGTAATCC

upper sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g02780.1 (Oryza sativa), 3'ss of exon 4
gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaaccttctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
    | ||   |||   |   |||   ||| |||||    ||   |||| |  ||    |  || ||             | ||||| |  ||      ||| |||| || || || || ||||| |||||||||||||| || |||||||||||||| ||||||    |||||| ||| || || || ||||| ||| | |
----gtaagtccctg--tggaaat---ctgatcaagt---atgtccattgtcatgatttattctgaagt---------tgtttttggatcgtg------cagTTTGAAGATCGCTTCTACATTTACCTGGAATATGTTCACCCAGGTTCAATTAATAAGTATGTCAAACAACATTATGGAGCAATGACGGAATCAGTTGTCC

upper sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G034877_T01 (Zea mays), 3'ss of exon 5
gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaaccttctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
|||||   ||||||    ||   | ||   |||     ||||| | ||      ||  |||  |  |     || |||  |  ||    |      |||||| | || ||  | || || || || ||||| ||||||||||||||||||||  |||| ||||| | | ||||||||||  |  | |||||||| || ||  
gtaagt--tctcctttgccacgttaagtacctc-----taatatttat------gtgccagtttccagtgatttgtaatgttcttttactcaactcttgcagATCGAAGATAGATTCTACATATACCTGGAGTATGTTCATCCTGGTTCAATCCATAAGTATGTTCATCAACATTGTGGATCATTGACAGAATCAGTCATCT

upper sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagcaatct-cctacttcagaattagctgctca-agattaataatc-attattctgtaacagc----cttaaaaaccttctaaca-tctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
|| || ||||   ||  ||    ||   ||| | | | ||  |||||| |     |     |||     || ||||  | |  | || |  |  | || ||  | | ||||| || || || || | ||| || |||||||||||||| || |||||||| || |||||| ||||||| ||||| ||  |||| |||||||||||| |||
gtgagtaatcaatctgtttatatatcctctgtttacatatatataatctacctacccaaggcagtgtggctgaaaattcattgagcaattctctgattgtgcatgtacagGTAGAAGATCGTTTCTTTATATACCTGGAATATGTTCACCCGGGTTCAATAAACAAATATATCCGTGATCATTGCGGCACCATGACAGAATCTGTTGTTC

upper sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaacctt-----ctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
|| ||  |||  |   | |||| |  | |  ||| | |||| | |  |  || |   |   || ||  ||| |       ||| ||||     |||||  | |||||||||| |||||| ||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||| || || |||||||||||| |||
gtgagtgatc--cagttgcagattatggtattcatgcttaacatttgtc-ttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC

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|9901544|gb|BE610512.1|BE610512
EST:     TTAGCAATCTAAAACATTCAAACATCGTACAGTATTATGGCAGTGAAATA                         GTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATT
genomic: TTAGCAATCTAAAACATTCAAACATCGTACAGTATTATGGCAGTGAAATAgtaagcaatc ... gtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATT
EST: gi|10710644|gb|BF010362.1|BF010362
EST:     TTAGCAATCTAAAACATTCAAACATCGTACAGTATTATGGCAGTGAAATA                         GTTGAGGACCGGTTNTATATTTATCTGGAATATGTTCATCCTGGTTCAATT
genomic: TTAGCAATCTAAAACATTCAAACATCGTACAGTATTATGGCAGTGAAATAgtaagcaatc ... gtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattctgtaacagccttaaaaaccttctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
                         ttctaac  putative branch site (score: 1)
                ttaaaaa  TA-rich tract