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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtgcatctgtctctttcttcttcctttggtttccttgtaccctcttttctttcacatcttaacaatatatgctgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGGATAGCAATAGGGGCTGCAATCTCACCAAGAT

Basic information

species Glycine max
transcript GLYMA17G09450.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G09450.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtagtgcatctgtctctttc---ttcttcctttggtttccttgtaccctcttttctt------tcacatctt-aacaatatatgctgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGGATAGCAATAGGGGCTGCAATCTCACCAAGAT
|||||        ||   | ||||    | ||   |||  ||  || |    | |  |         | | || || ||    | ||   |      |||| |||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||| |  || ||||| || || || || || || || |
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT

upper sequence: GLYMA17G09450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g08870.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtagtgcatctgtctctttcttcttcctttggtttccttgtaccctcttttctttcacatcttaacaa----tatatgctgtt---tgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGGATAGCAATAGGGGCTGCAATCTCACCAAGAT
|| |||      |   ||| || ||   ||| |     | |||  | | | |      | |||    |||||    ||  |||| ||   |   |||| |||||||| || || || || |||||||||||||| || ||||| ||||||||||| ||||||| ||| || || |||||||||||||| ||||| |
gtgagtttcaagt---tcttttactctgtccatca---tgcttaaaacttttgccacataacagaaaaacaaggactaattgctcttaatttgcagACCGATGCATACCAGGCCACTGGCTGCTACAACTTACTTTGCTCAGGTTTTGTCCAAACAAACAACAAGATCGCTATTGGGGCTGCAATCTCTCCAAGGT
















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|31456089|gb|CD398117.1|CD398117
EST:     GTCCTGAGCTATATGGAGACAACTATCCTAGGTTCTTCACTTATTGGACA                         ACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT
genomic: GTCCTGAGCTATATGGAGACAACTATCCTAGGTTCTTCACTTATTGGACAgtaagtagtg ... tgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT
EST: gi|18732382|gb|BM527014.1|BM527014
EST:     GTCCTGAGCTATATGGAGACAACTATCCTAGGTTCTTCACTTATTGGACA                         ACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT
genomic: GTCCTGAGCTATATGGAGACAACTATCCTAGGTTCTTCACTTATTGGACAgtaagtagtg ... tgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttccttgtaccctcttttctttcacatcttaacaatatatgctgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGGATAGCAATAGGGGCTGCAATCTCACCAAGAT
                             tcttaac  putative branch site (score: 2)
                            atcttaacaatatat  TA-rich tract