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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatacttttataattcctttcatctttttatacagatttagaaaatatctgtatttctagaagtgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA

Basic information

species Glycine max
transcript GLYMA01G09660.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------------------gttcatac-ttttataattcctttcatctttttata-cagatttagaaaatatctgtatttctagaagtgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
                                                                                   ||| | |||   ||||  | |  | | | ||||  |  |||   |   |||||| ||  |  |   | | ||   |     ||||||||| ||||| ||||| ||||| || || ||||||||  | |||||||||||||||||||| |||||||| ||||| |||||  | || ||||| | |||||
gttgcttcacctttttgaacttgaccctatatatgcctttcccctatcttttgtttccacaaaagatcttaatacaaaccaaacattcatttcgcaatttatattttgtatgtatagtatctttttcatccatctgtgttgtttaacaagatgaacgatggcatttttcagGTTTATCCGATGTATAAGGCTTTCATTGAGCCAGACTTGCAGACAGCACATATAAAAATAATCAACAAGTTCAACCCATTCTCAGGGTTCCAAAATCCTA

upper sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
---------------------gttcatac-ttttataa------ttcctttcatctttttatacagatttagaaaatatctgtatttctagaag--tgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
                     |   |||| |||||| |      ||  | ||   | || | |  || |||     || ||||| ||   |  |  |  | || | | |   ||||||||| ||||||||||||||||| || ||||| |||||| |  |||| |||||||| || ||||||||||| ||||| |||||| | || ||||| | |||||
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctctta-ctgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA

upper sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G143804_T01 (Zea mays), 3'ss of exon 1
-----------------------------------------------------------------------gttcatacttttataattcctttcatctttttatacagatttagaaaatatctg-tatttctagaagtgcttaagtttaa---------acattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
                                                                         |     ||  | | |       ||||| |  | ||  || | |    ||  | | || ||  || || |   ||||||         ||||||| |||| |||| |||||||||||| || ||||| |||||| | ||||| |||||||| |||||||| ||||| ||||| ||||   | || ||||| | |||||
gtacaacgagctagccaggaacccgaagaaataattgatcaaatctctcaaacgataggttgaaatttccaacttggctttacacattaggagcaatcttgtggttcatgttaacagtgaattggctcttactgtaattggtgtggtttaatcaaagatgacatttttagGTTTATCTAATGTACAAGGCTTTCATCGAACCAGATTTACAGACCGCACATATTAAAATCATTAACAAGTTCAACCCATGCTCAGGTTTCCAAAATCCTA

upper sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 4
gttcatacttttataattcctttcatctttttatacagatttagaaaatatctgt-atttctagaagtgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
|||  | ||  | |  ||  |||| | |   | |   | ||   | |  | |||  | || |  |  |    || |       | |  |||| || || |||||||| || || || ||||||||||||||||| || || || |||||||| || |||||||| || || ||||| || ||||| || |
gtttgtcctcatttcttttatttcgtgtgactgtttggtttagtatatgagctgccaattgtttatattaacaactcactgtttatgtagGTATACCCGATGTACAAAGCTTTCATTGAGCCAGATCTCCAGACTGCTCAAATCAAAATCATTAATAAATTCAACCCCTTCACTGGTTTTCAGAGCCCGA

upper sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
gttcatacttttataattcctttcat-ctttttatacagatttagaaaatatct-gtatttctagaagtgcttaagtttaaacatttt--cagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
|||| | |  |||   |    |  || |      ||   |||| ||    || | |  |||| |||| | || || |  |  | |||   ||||| ||||||||||||||||| ||||| ||||||||||||   ||||||||||||||||||| ||| || ||||| ||||| |||||||| |||||||| |
gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaatttctcaactacattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagatttagaaaatatctgtatttctagaagtgcttaagtttaaacattttcagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA
                                              cattttc  CT-rich tract
                                   ttaagtttaaacattt  TA-rich tract