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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccttacatttttcctcctttgaacaattgtgactgcttccattattcaaaacagctggagtgtttttgatgaaattgataaacttagcactgaaatttagtttttctccctttagattaatcctatgtggttttggtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTCC

Basic information

species Glycine max
transcript GLYMA05G34280.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G34280.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G30970.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaaccttacatttttcctcctttgaacaattgtgactgcttccattattcaaaacagctggagtgtttttgatgaaattgataaacttagcactgaaatttagtttttctccctttagattaatcctatgtggttttggtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTCC------
                                                                              ||   || |  |     | |   |  ||    | | ||| | |||   || | | || |     ||| | || || || |||   || ||| |     |||||||  |      |||  | ||||||||||| ||||| ||||| ||| | |||||||||||||| || || || |||||||||||||||||||||           
-----------------------------------------------------------------------------gtt--caatcccaagttcgtagaatcattgacttacatttggtttag--ctgttttgtatca--aattgtaatatctttttcatgttttgttgc---cgtagGTGGGAC------TAATGCTCATTCTTATGCCTCTGGCCCAAACACTAGCGGTCCTTCAATTGGTCCACCTCCTGTAATTGCAAACAAAGCTCCTAGCAATCAGCC

upper sequence: GLYMA05G34280.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0011g01240.t01 (Vitis vinifera), 3'ss of exon 4
gtaaccttacatttttcctcctttgaacaattgtgactgcttccattattcaaaacagctggagtgtttttgatgaaattgataaacttagcac-tgaaatttagtttttctccctttagattaatcctatg-tggttttggtgattttcatttccttctcactcttggttacttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCTCCCCCAGTAATTGCAAACAAAGCTCCTGCTCC
                                                                             | | ||| | ||  ||   | || | | ||| | |    ||   || |   | |  |   |||    |||||  |||  || |  || ||  |||    | |||||||  || | |  ||||||||||||||||||||||||||||||||||||||||||||||||||||| || || || |||||||| |||| ||||||| |
----------------------------------------------------------------------------caataatacagttgccatacgcaagtcattttgtttatagtttagttgactgtgtaataaattt--caattttagttttatttttgcttttatttat---tgtagGTGGGCCATCAATCAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTGGTCCTTCAATTGGGCCACCTCCTGTCATTGCAAATAAAGTTCCTGCTAC
















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|6095024|gb|AW119691.1|AW119691
EST:     GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
EST: gi|6846393|gb|AW348683.1|AW348683
EST:     GAGCAGCNNNNNTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
EST: gi|7042083|gb|AW471977.1|AW471977
EST:     GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
EST: gi|6095005|gb|AW119672.1|AW119672
EST:     GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAG                         GTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG
genomic: GAGCAGCAACTCTTCAGTAACAAGTAGTTATCAGGCTATAGGGGTTCCAGgtaaccttac ... acttgtatagGTGGAGCAGCTAGTAACTCACATTCTTATGCTTCTGGTCCAAATACTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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