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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtataagatccatgcatacatgtgaaaggaaaaaatttctgtataatcatttggttgttacttctatttattttgactacatatttttttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTGTAGGATACACTGTTGGCTTGGTCCT

Basic information

species Glycine max
transcript GLYMA06G08620.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 9
atgtataagatccatgcatacatgtgaaaggaaaaaatttctgtataatcatttggttgttacttctatt-tattttgactacatatttttttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTGTAGGATACACTGTTGGCTTGGTCCT
  || |  |     ||  |  | || ||   |   | ||    |      |||   |||||  |||| |  |  ||    |  ||  |||| |  ||  ||| ||||||||||||||||| ||||||||||||||||||||||| |||  |  |||||| || |||||||||||| | ||||| ||    || |||||  |
gggtgttggggttgtgtttgta-gttaataaaggcacttcaattgatcgtattaatttgttttttctttgatgcttaccttgaattgttttctttctttagGCATTTTTGTAGCATTGGCATTGCGATTTGATGTGTCCAGAGGGAAAGGGAACCAGTACTTTAAGAGTGCATTTTTGGGATATACAACCGGTTTGGTTGT
















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|298185323|gb|HO030536.1|HO030536
EST:     TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
EST: gi|254349304|gb|GR860102.1|GR860102
EST:     TTCAGCAAGGCCA-TTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: TTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
EST: gi|21887533|gb|BQ740746.1|BQ740746
EST:     CCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: CCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
EST: gi|5342731|gb|AI795015.1|AI795015
EST:     TCAGCAAGGCCCATTT-CAATGCTTGGCCTTGGTGATATTGTTATCCCTG                         GTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC
genomic: TCAGCAAGGCC-ATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTGgtaggatgac ... ttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatcatttggttgttacttctatttattttgactacatatttttttccctccagGTATTTTTGTAGCATTGGCTTTGCGATTTGATGTGTCCAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTGTAGGATACACTGTTGGCTTGGTCCT
                           ttttgac  putative branch site (score: 3)
                                    catatttttttccctc  putative PPT
                  ttctatttattttgac  TA-rich tract