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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttatccttcatctgtcttgcgcctattccaagctataaattgtgtgctctgtattgcaataaggacttataattccctctaactcattttacttttcttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG

Basic information

species Glycine max
transcript GLYMA03G40210.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0121g00080.t01 (Vitis vinifera), 3'ss of exon 3
gtaagt-tatccttcatctgtct-tgcgcctattcca---agctataaattgtgtgct-ctgtattgcaataaggacttataattccctctaactcattttactttt---cttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
|||||  |    |  |||||| |      ||     |   || | ||   |||   || ||  |   |  |   |  | ||   | |    |  |  ||   | |||    ||||||||||||||| ||||||||||||||||||||| |||   | ||    | |
gtaagcatgctatatatctgtgtacatttctgcattatgtagatttattctgttcactactagacctctctttagcgtaatcggttcaatcatgtgtttgctcatttgtgtttccagATTTCATGTGTATGATGTTGATACAAAATATTACAATTTACCTGTGAAG

upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 1
gta-agttatccttcatctgtcttgcgcctattccaagctataaattgtgtgctctgtattgcaataaggacttataattccctctaactcattttacttttcttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
||| | || | | | || |   ||    || |||    |      | |    |||| || ||  ||  ||    || ||    |    ||||||    | |  |||||||||||| || |||||||||||||||||||||  ||   | ||    | |
gtacatttcttcattatgtagatttgttctgttcactacatctggtagacctctctttagtgtcatt-ggttcaatcatgtgttt--gctcatt----tgtgtttccagATTTCACGTGTATGATGTTGATACAAAATATTTCAATTTACCTGTGAAG

upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g00500.t01 (Vitis vinifera), 3'ss of exon 3
----gtaagttatccttc-atctgtcttgcgcctattccaagctataaattgtgtgctctgtattgcaa--------taaggacttataattccctctaac--tcatt--ttacttttcttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
    | | |||||   || || |   || |  |  |    || | ||   ||| | ||   | | | |         | ||      |  |||  ||      |  ||  ||  | || ||||||||||||||| ||||||||||||||||||||| |||   | ||    | |
gtaagcatgttatatatcgatgtacatttcttcattatgtagatttattctgtttactacatctggtagacctctctttagtgtcattggttcaatcatgtgtttgttcattggtgtttttccagATTTCATGTGTATGATGTTGATACAAAATATTACAATTTACCTGTGAAG

upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g00600.t01 (Vitis vinifera), 3'ss of exon 1
gtaagt-tatccttcatctgtct-tgcgcctattcca---agctataaattgtgtgct-ctgtattgcaataaggacttataattccctctaactcattttactttt---cttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
|||||  |    |  |||||| |      ||     |   || | ||   |||   || ||  |   |  |   |  | ||   | |    |  |  ||   | |||    ||||||||||||||| ||||| ||||||||||||||| |||   | ||    | |
gtaagcatgctatatatctgtgtacatttctgcattatgtagatttattctgttcactactagacctctctttagcgtaatcggttcaatcatgtgtttgctcatttgtgtttccagATTTCATGTGTATGACGTTGATACAAAATATTACAATTTACCTGTGAAG

upper sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g00570.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagttatccttca-tctgtcttgcgcctattccaagctataaattgtgtgct-ctgtattgcaataaggacttataattccctctaactcattttactttt---cttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
    | | | |||   ||| | |   || |  |  |    || | ||   |||   || ||  |   |  |   |  | ||   | |    |  |  |||  | |||    ||||||||||||||| ||||||||||||||||||||| |||   | ||    | |
gtaagcatgctatatatcagtgtacatttctgcattatgtagatttattctgttcactactagacctctctttagcgtaatcggttcaatcatgtgttttctcatttgtgtttccagATTTCATGTGTATGATGTTGATACAAAATATTACAATTTACCTGTGAAG

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|192315059|gb|FK010429.1|FK010429
EST:     ATAGAGAAAATTAGTGTAGCATTTCACTTTGAAATTGTGCAACCACTTGA                         ATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
genomic: ATAGAGAAAATTAGTGTTGCATTTCACTTTGAAATTGTGCAACCACTTGAgtaagttatc ... tttcttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtattgcaataaggacttataattccctctaactcattttacttttcttccagATTTCATGTATATGATGTTGATACAAAATATCACAGCGTTCCCACCACG
                            ctctaac  putative branch site (score: 2)
                        ttccctctaactcatt  CT-rich tract
                                     attttacttttctt  TA-rich tract