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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaatcattttctattttgaattccatatgcataggcctttgcctaatgttaactttacaatagtactatattgaactaatctgcttcttctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACGGCTGTATCTTTCCAAGTCCTTGGAC

Basic information

species Glycine max
transcript GLYMA05G31940.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G089630_T01 (Zea mays), 3'ss of exon 6
gaaatcattttct----attttgaattccatatgcataggcctttgcctaatgttaactttacaatagtactatattgaactaatctgcttcttctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACGGCTGTATCTTTCCAAGTCCTTGGAC
  |  ||||| ||    ||| | ||||   | | | | |      || | |    ||| |  | |        | ||   ||        | |||  ||| ||||| || ||| |  | || ||||  || || || ||||| ||||| ||||||||||| ||||| || || |||||||| || || ||||||||||| || |
agatccatttgcttgatattataaattttcttt-ctttgctgcaagcttgac--caacctggccaagacttattgttttcctgtcacatgttttcctttt-cagTTCTTTATCGTGTTGTCGTGCATAATTGCTGTCGGGACCAACCTAAGCCAGTTCATATGCATCGGAAGATTCACGGCCGTCTCGTTCCAAGTCCTAGGTC

upper sequence: GLYMA05G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G39390.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------------gaaatcattttctattttgaatt-ccatatgcataggcctttgcctaatgttaac--tttacaatagtactatattgaactaatct-------gcttcttctg------ttt-----gcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACGGCTGTATCTTTCCAAGTCCTTGGAC
                                                                  | |||  | || | | | |   ||||   ||  || |||     || | ||    | |   |  |||| | ||| | |  |||       |||   |||       |||     |||||| ||| | ||  |||| ||||  ||||| || ||||| || |||||||| |||||||| ||||| || |||||||| || ||||||||||| ||||| |
gtaaagtttcttctccgtttctttacaaagtctcctacgattcaaaacagagcaatgagtatttggaacatagtgtagtattagtagtcataccaattcgcatttattccatctcaagaactgattgttatactctgttggatttgtctttcctaagctctatctaacacaattttttgggcagTTCTTCTTAATACTCTCGTGCAGTATCGCGGTTGGGACCAATCTCAGCCAATTCATCTGTATTGGAAGATTCACGGCGGTGTCTTTCCAAGTACTTGGTC

upper sequence: GLYMA05G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 3'ss of exon 5
gaaatcattttctattttgaattc-catatgcataggcctttgcctaatgtta-actttacaatagtacta-tattgaactaatctgcttcttctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACGGCTGTATCTTTCCAAGTCCTTGGAC
   ||  |  | | | |   ||||    |||  |  || |    ||  | |   |   |  |  | | ||  |  |||  |   |  |||  | |   ||||| ||||||||||| | || ||||| || || ||||| || ||||||||||| |||||||| ||||| || ||||| || || || ||||||||  |||| |
--tatattcatttttctcatattcatgcatgtttttgcatcctgctcgtatcgtatcatttaggaatgctgctgatgatttgccccactttgt-tccctgcagATGTTCATCATTCTGTCCTGCACAATTGCGGTAGGAACCAACCTCAGCCAATTCATCTGTATTGGAAGATTCACTGCAGTGTCCTTCCAAGTGATTGGGC

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|193625706|gb|FK574796.1|FK574796
EST:     ACAACTATGGTTTCTACATCTACT                         TTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCA
genomic: ACAACTATGGTTTC-ACATCTACTgtaagtttct ... ctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCA
EST: gi|193478934|gb|FK444545.1|FK444545
EST:     GGCTGACAAACAAACGAGTTGACGCCTACAACTATGGTTTCACATCTACT                         TTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAG
genomic: GGCTGACAAACAAACGAGTTGACGCCTACAACTATGGTTTCACATCTACTgtaagtttct ... ctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAG
EST: gi|15200449|gb|BI424355.1|BI424355
EST:     GGCTGACAAACAAACGAGTTGACGCCTACAACTATGGTTTCACATCTACT                         TTGTTCATCATTATCTCTTGCACCATCGCAGTAGGG
genomic: GGCTGACAAACAAACGAGTTGACGCCTACAACTATGGTTTCACATCTACTgtaagtttct ... ctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttaactttacaatagtactatattgaactaatctgcttcttctgtttgcagTTGTTCATCATTATCTCTTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACGGCTGTATCTTTCCAAGTCCTTGGAC
                             aactaat  putative branch site (score: 2)
                                   tctgcttcttctgttt  CT-rich tract
              aatagtactatatt  TA-rich tract