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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgactgtatagtatattttggcatcatttgtaacaccaaactctaagctcttgtgcaagtggtgacaagtgagtttcatactaactatctttttgttttttctcttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT

Basic information

species Glycine max
transcript GLYMA10G02720.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02720.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g34840.1 (Oryza sativa), 3'ss of exon 2
gtactgactgtatagtatattttggcatcatttgtaacaccaaactctaagctcttgtgcaagtggtgacaagtgagtttcatactaactatctttttgttttttctcttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT
                    |  |||||||   ||     ||     |   |  |||     ||  ||| | |     || | | | |     ||   |    ||||      |   |||||||||||| || || ||||| |||||||| ||||||   |||||||||||||||||||||||| |||| |  ||  |||| || || || |||||||| ||||
-------------------gtcaggcatcacaagt----tcacttgttgttcctttgactctgtt-tgatatgca---tttacagttatggatttgcggcgcattctgagttttgccttttcagGCTGAAGGAATCTTTCGCATAAACCCGGAAAATGACCAAGAGGAGCATGTGAGGGACCAGCTGAACAAAGGAGTTGTCCCTGAGGACATTGATGTTCACT

upper sequence: GLYMA10G02720.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
--------gtactgactgta-tagtatattttggcatcatttgtaacaccaaactctaagctcttgtgcaagtggtgacaagtgagtttcatactaactatctttttgttttttctcttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT
         |   | ||  | ||||||||          |       |   |     ||  |  |    |  ||||  |           ||   | | || || ||  |   | | || | |   |||  |||| || || || ||||| |||||||| || ||||| ||||| |||  ||||||||||||| |||| ||||||||||||||   |||||||||||| ||||
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttatcaggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT

upper sequence: GLYMA10G02720.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S1_829V6.2 (Physcomitrella patens), 3'ss of exon 3
----------------------------------------------------------------gtact-gactgtatagtatattttggcatcatttgtaacaccaaactctaagctcttgtgcaagtggtgacaagtgagtttcatactaactatctt-tttgttttttct-----cttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT
                                                                | ||| | |||  |    ||  ||| | | |  ||||  ||   |||  |   |   || |      ||| | |   ||||   || || | ||   ||   | |  ||      || | |     |||||||||| ||||| ||| | ||||| ||||| |||||||| |||||||||||| |||| ||  | || |  ||||| || || |  || ||  || | ||  
gtgcgtccaatctgagaataacagcatgagaaatcttttatgtctgctctatttgaacattttagaacttgtctgggtcagttagcttgacctaacgtgtataacatgactgcagaatgcggtaccttccatga-acgcctgttt-gcaccaagtttcaggttcaatctaactagaagttttactgttcattcagGCTGAAGGTATTTTTAGGATAAATCCCGAGAATAGTCACGAGGAGCATGTGCGGGAGCAACTCAACAAAGGCATCGTCCCTGCCGACATCAATATTCATG

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|24136330|gb|BU926840.1|BU926840
EST:     CTATTCTTTTGCTAATGCAGGACCGTCTATACTCGCAGGGAGGCTTGAAG                         GCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTG
genomic: CTATTCTTTTGCTAATGCAGGACCGTCTATACTCGCAGGGAGGCTTGAAGgtactgactg ... caattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagtgagtttcatactaactatctttttgttttttctcttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT
             tactaac  putative branch site (score: 0)
                   ctatctttttgttttt  CT-rich tract
                    tatctttttgtttttt  TA-rich tract