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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccttacattttccctcctttgaacaattgagtttgtgactgatttcgtcttttaaaacagcaggagagtttttgataaaattgataaacttagcactgaaatttagttcttctctcgttagatcaatgtttaatcctatgtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTAC

Basic information

species Glycine max
transcript GLYMA08G05390.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05390.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G30970.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaaccttacattttccctcctttgaacaattgagtttgtgactgatttcgtcttttaaaacagcaggagagtttttgataaaattgataaacttagc-actgaaatttagttcttctctcgttagatcaatgtttaatcctatgtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTAC------
                                                                       |||       || ||  || | | |   ||| | |||| |||   || |  ||  |||||                ||| | || || || |||   || ||| |     |||||||  |      |||  | ||||||||||| ||||| ||||| ||| | |||||||||||||| || || || |||||||||||||||||||||   |       
-----------------------------------------------------------------------gttcaatcccaagttcgtagaatcattgacttacatttggtttagctgtt-ttgtatcaa----------------attgtaatatctttttcatgttttgttgcc---gtagGTGGGAC------TAATGCTCATTCTTATGCCTCTGGCCCAAACACTAGCGGTCCTTCAATTGGTCCACCTCCTGTAATTGCAAACAAAGCTCCTAGCAATCAGCC

upper sequence: GLYMA08G05390.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0011g01240.t01 (Vitis vinifera), 3'ss of exon 4
gtaaccttacattttccctcctttgaacaattgagtttgtgactgatttcgtcttttaaaacagcaggagagtttttgataaaattgataaacttagcac-tgaaatttagttcttctctcgttagatcaa-tgtttaatcctatgtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTAC
                                                                                   | | ||| | ||  ||   | || | | ||  | | | |||   |  | ||| ||||    |   |||||  |||  || |  || ||  ||| |    |||||||  || | |  ||||||||||||||||||||||||||||||||||||||||||||||||||||| || || || |||||||| |||| |||||||||
----------------------------------------------------------------------------------caataatacagttgccatacgcaagtcattttgtttatagtttagttgactgtgtaataaatttcaattttagttttatttttgcttttatttatt---gtagGTGGGCCATCAATCAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCACCTCCTGTCATTGCAAATAAAGTTCCTGCTAC
















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|15813116|gb|BI785391.1|BI785391
EST:     GAGCAGCAATTCTTCTGTAACAAGTAGTTATCAGGCTATAGGGATTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCA
genomic: GAGCAGCAATTCTTCTGTAACAAGTAGTTATCAGGCTATAGGGATTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCA
EST: gi|254345520|gb|GR851682.1|GR851682
EST:     AAGTAGTTATCAGGCTATTAGGGATTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: AAGTAGTTATCAGGCTA-TAGGGATTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
EST: gi|5342770|gb|AI795054.1|AI795054
EST:     GAGCAGCAATTCTTCTGTAACAAGTAGTTATCAGGCTATAGGGATTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTC
genomic: GAGCAGCAATTCTTCTGTAACAAGTAGTTATCAGGCTATAGGGATTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTC
EST: gi|208259384|gb|GE053870.1|GE053870
EST:     CTATAGGGATTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: CTATAGGGATTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtttaatcctatgtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTAC
                              ttctcac  putative branch site (score: 2)
                  attttcattt  TA-rich tract