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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatatttgcattgaatcatttactctctatatttctcttgttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT

Basic information

species Glycine max
transcript GLYMA05G31270.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G31270.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 19
gtaagatatttgcattgaatcatttactctctatatttctcttgttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT
||  ||||  |   |  ||||    | |     ||||| |        | |||   |       ||||     | |   ||| ||| |||||||||||||  | || ||||||||||| || || ||||||||| ||||||| |||||||||||||| || |||| ||| ||  | |||||
gtt-gataaatttttcaaatc--caaatgatattatttttgcatagaatttcccaacaagttctcaatttcggattg-cagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT

upper sequence: GLYMA05G31270.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os05g01700.1 (Oryza sativa), 3'ss of exon 16
----------gtaagatatttgcattgaatcatt-tactctctatatttc-tcttg--ttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT
           | | | | | |    || |      |  | |  |||||| |||||   | | ||      ||       ||  | ||| || ||| ||| |||||||||| ||| |||| |||||||||||||| || ||||| ||  |||| || ||||| |||||||| || || | ||||||  | |||||
gttaataatcatcaaa-actcgaggggagttggcacaaccacattatttcatcttgaactacactaaatattctacttttattttgtac-aacagGAGAGTTGGCACATGCTCTGCGGTTCTTGGCATCTGTTGTGTCACAAAGTTTCATAGCCTTTGGTGACATTCTTGACTTACACAAAAAGTTCCTTGAACT

upper sequence: GLYMA05G31270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G074241_T01 (Zea mays), 3'ss of exon 2
--------------------------------------gtaagatatttgcattgaatcatttactct-ctatatttctcttgttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT
                                        || || || |||  |  ||  || || | |  | || || |||         |    | |  |   |     | | | ||| ||| |||||||||| |||||||| ||||||||||| || || ||||||||  |||| || |||||||||||||| || || |  |||||  | |||||
gttggcattaatcttgaaagttccattattaaaaaaaaacaaaatcttggcagcgcttccatttctgtgcggtgttccttttggcatagagtttatgctctcatgttttcggaattacagGAGAGTTGGCACATGCTCTGAGGTTCTTGGCATCTGTGGTGTCACAAAGCTTCATAGCGTTTGGTGATATTCTTGAGTTACACAAGAAGTTCCTTGAACT

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|27809152|gb|CB063574.1|CB063574
EST:     AATATATGCCATGGAACACAAGGGAGACCGCGCATCAGTAACTACTCAGG                         GTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCT
genomic: AATATATGCCATGGAACACAAGGGAGACCGCGCATCAGTAACTACTCAGGgtaagatatt ... atactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctatatttctcttgttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT
                            ctctcac  putative branch site (score: 3)
                                       aatactatactaata  TA-rich tract