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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttttacatcagctatgttctctgagtattaactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG

Basic information

species Glycine max
transcript GLYMA20G35990.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35990.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g02270.1 (Oryza sativa), 3'ss of exon 8
gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttttacatcagctatgttctctgagtattaactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
                  | | | | |||| |    | ||  |  || | |    |  ||  ||||  |   ||  |   |     |  | |  |      |   |  |||| |||  || || ||||||||||  | || || |||||||||||||||||||| ||||| |||||||||||||||||||| |||
------------------gtagttatatggtacctcctaattaa-gtgtcagggaaattac-ttctgagcaaatgtatctacaagaaaattctgaaactcaaaacctgtatttttt--ttctgttgcagTTTCGATCTGCAATCCAGTTGCAATTTGATTTCCACCGGGCTATTTACAATCTTGGAACTGTCCTG

upper sequence: GLYMA20G35990.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os10g37430.1 (Oryza sativa), 3'ss of exon 8
gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttttacatcagctatgttctctgagtattaactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
                        ||||| ||||      | | |  | | |   |   || ||   ||| | | | ||  | |  |||       |    |   ||   ||||    | |||  ||||||||| || || || ||  ||||||||||||||||||||||||| ||||||||||| || ||  ||
----------------------gtagatgcaattt-----ctattactgtgcgagaatcatttttgatgattgt-atcttctataaactattgggctgttgacgccccccttctgatgtcttg--gcagTTTCGAGCTGCAATTCAACTGCAATTTGATTTCCATCGGGCAATATACAATCTTGGGACAGTCTTG

upper sequence: GLYMA20G35990.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G073934_T01 (Zea mays), 3'ss of exon 8
gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttttacatcagctatgttctctgagtattaactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
                           | ||           | |||| | | |  |   | || |    |||||  || | |   | ||     |||||     |  |     |   || |  ||||||| ||||| || || ||| ||||||||||||||||||||||||| ||||| || ||||||||  ||
--------------------------gtagatacacttttttattgttgtgcctatgaattatttttatggtattg-cttagtaaaaattatctctttgatgaaccactgacactaacttctactgcagTTCCGTGCTGCAATTCAGCTGCAATTTGATTTCCATCGGGCAATATACAACCTCGGAACTGTCTTG

upper sequence: GLYMA20G35990.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G41950.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttt-tacatcagctatgttc-tctgagtatt--aactcatttccact-tccacatttgacatttccatattctttgattt-tgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
                                           ||| || | | || |      |  | | |  |||  |  | || | |||  |  |  ||| ||  | || | |   ||| |||   || |||||||| || || ||   ||||||||||||||||||||| || || ||||| |||||||| ||||||
-------------------------------------------gtgcttattcgtctgtcgaactaatgtaaacattgcatttgatatgcacgattgattttttactgtcccttgtcgcttgttttaccatacagTTTCGGGCGGCAATCAGGTTGCAATTTGATTTCCATCGAGCCATATACAACCTTGGAACCGTTCTG

upper sequence: GLYMA20G35990.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g02520.t01 (Vitis vinifera), 3'ss of exon 8
gtaacaaaaatatttgagggaatcagatggaattgacaaacaagtgttttacatcagctatgttctctgagtattaactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
||| ||||  ||  | || ||  || |  |   |     |  | | |     | ||   || |    | | ||| |  | | ||  |  | |   | |     | || |   | ||| |  |  ||||||| || ||||| |||||||||||||||||||||||| | ||||||||||| ||||| |||||||||
gta-caaatttaactcagaga--catacagtgct--tggatgaatatacaggaacaagcat-taaaataattataattttagttgaatgttctattcttttgatacctttcaccttg-tcatattgcagTTCCGAGCAGCAATACAGTTGCAATTTGATTTCCATAGAGCAATTTACAACCTTGGTACTGTTCTG

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|12773285|gb|BG238212.1|BG238212
EST:     TTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAG                         TTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
genomic: TTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAGgtaacaaaaa ... tttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
EST: gi|298173874|gb|HO017210.1|HO017210
EST:     TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAG                         TTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
genomic: TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAGgtaacaaaaa ... tttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
EST: gi|254324005|gb|GR836237.1|GR836237
EST:     TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAG                         TTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
genomic: TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAGgtaacaaaaa ... tttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAAT
EST: gi|15814226|gb|BI786501.1|BI786501
EST:     TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAG                         TTTCGTGCAGCCATACAGTTGCAATTTGATT
genomic: TTGTTCCAGCTCGAGAAAAGCAAAAGATTGTGAGAACTGCTATCAGCAAGgtaacaaaaa ... tttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactcatttccacttccacatttgacatttccatattctttgattttgatgcagTTTCGTGCAGCCATACAGTTGCAATTTGATTTCCATCGGGCAATTTACAATCTTGGAACTGTTCTG
                                 atattctttgatttt  TA-rich tract