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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcatcatcctttcttttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG

Basic information

species Arabidopsis thaliana
transcript AT5G06910.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G090689_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------gtaattcatcatcctttctt--ttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
                                                    | || | |      |    |  | | | ||  |||   |  |   |  |||   ||   |   ||||   |||||| |||||| ||||| ||||||| || || ||||||||||| ||||| ||||| || ||  |||||||||| ||||  | ||
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagtgaaagctgtaaactggtccaacatgcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG

upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
-------------------------------------gtaattcatcatcctttcttttcgatattgtt---gaggttgtgagttgatttatatat-----atattttcttcc---cagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
                                       ||  | | |||||      |  | | || |      |   ||  || |||| |||||      | ||  ||||    |||||| |||||| ||||| ||||||| || || ||||||||||| ||||| ||||| || ||  |||||||||| ||||  | ||
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG

upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G075485_T02 (Zea mays), 3'ss of exon 5
-------------------------------------gtaattcatcatcctttcttttcgatattgtt---gaggttgtgagttgatttatatat-----atattttcttc---ccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
                                       ||  | | |||||      |  | | || |      |   ||  || |||| |||||      | ||  ||||   ||||||| |||||| ||||| ||||||| || || ||||||||||| ||||| ||||| || ||  |||| ||||| ||||  | ||
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGACGAGGCGATTGGTGAAG

upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G129987_T01 (Zea mays), 3'ss of exon 5
--------------------------------gtaattcatcatcctttcttttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
                                | || |  | |     ||     |   |||||    || |      | | | ||   |    |||  ||||||| |||||| ||||| ||||||| || || ||||||||||| ||||| ||||| || ||  | |||| ||| ||||| | ||
tttccttttatgtttgatcaaaaatgtaaactgaaagttgtgaagtggtccaacaggc-ttgttttaattttctac--aatgacattcttcccatctatccagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCCCACCGCTTCAAGGATATAATCGATGGGGCGATTGCTGAAG

upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G12350.1 (Glycine max), 3'ss of exon 5
-----------gtaattcatcatcctttcttttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
           || ||     |     | || | |      |  ||  | | ||||   |      ||  ||  |||  |||||||||||| ||||||||||| || || || || ||||| |||||||| ||||| || ||  |||||||||  || || || |
gtaaaaacattgtgatgaggaagaaccttttgttgg----ataaagaatttcagtttgatatcgagtaacttccctttgcagGCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG

upper sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 3'ss of exon 5
--------gtaattcatcatcctttcttttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
        | || |     ||| |||||||   | || | |   |   |  |     | ||      ||| |||| |||||| ||||| ||||||||||| || ||||| ||||| ||||||||||| ||||| || || ||||||||||| ||  ||||||
gtacaatagcaaatgtgtttcccttctttttttttttttaggcttgccggatcagcctctaatctgctttccttctcagGCTTTTCTGTTCAATGCTTTGTTCTGACCCTAAGCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttcgatattgttgaggttgtgagttgatttatatatatattttcttcccagGCTATTCTGCTCAATGCTTTGCTCGGACCCCAAGCTTGATTCACACCGTTTCAAAGACATGCTTGATGAGGCCATTGCAGCAG
                         agttgat  putative branch site (score: 5)
                                       tatattttcttccc  putative PPT
                    ttgtgagttgatttat  TA-rich tract