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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG

Basic information

species Zea mays
transcript GRMZM2G006753_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 3'ss of exon 5
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactg-gtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
          ||  ||  ||  |    |||   ||| | ||   | ||| | ||| ||  | || ||      |     | | ||  |||||||| ||    | || ||||| ||| ||||||||| ||  |||||||||||||||| |||||||||||||| || ||||| || ||||||||||||||||| |||| |||||
---------gtggcttacaaaat----ttagtgttgattaattttctatacagaaggcaatgaattgcaagtgaataattgggttccatttctattttaatttggtgcccttgtatgcagGCTTTTTTGTTCAATGATTTGCTCAGATCCAAAGCTTGATTCCCATCGCTTTAAAGATATAATTGATGAGGCAATTGCTGAAG

upper sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G31080.1 (Glycine max), 3'ss of exon 5
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
                                                   | ||| |  |    ||    |  |   ||  ||  ||    |  ||    ||| |     || | |||||| |||||  ||||| |||| ||||| || || ||||| |||||||| ||||||||||| ||||||||||  || | ||  |
--------------------------------------------------gtaaaaacattgtgatgaggaagaaccttttattggatacagaatttcagtttgatattccctttgcagGCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCTCACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG

upper sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G12350.1 (Glycine max), 3'ss of exon 5
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
                                     | ||| | || |  |||           | ||   | |       ||| | ||  |||| |      |||||||   | |||||| |||||  ||||| |||| ||||| || || ||||| || ||||| ||||||||||| ||||||||||  || | ||  |
------------------------------------gtaaaaacattgtgatgaggaagaaccttttgttggataaag--aatttcagtttgatatcgagtaacttccctt---tgcagGCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG

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

upper sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaac--aggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
                              |  ||  |||  || || |  | |    ||| || |     |    | | |||| | ||  |   |||||| | | |  |  |   ||||||||||||||| ||||| |||||||  | || ||||||||||| ||||| ||||| ||||| || |||||||| ||||  |  |
-----------------------------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacat---tattggtactatatctct---ttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG

upper sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 3'ss of exon 5
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaacaggcttgttttaattt-ctatattggcat----tgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
                                              ||   |   |  |||       | |       || |||    || |   ||  || |    | | |  | ||  |||||||||||||  ||||| |||| || || || ||||| ||||| ||||| |||||||||||  |||||||||| ||    | ||
---------------------------------------------gtacaatagcaaatgtgtttcccttctttttttttttttaggcttgccggatcagcctctaatctgctttccttctcagGCTTTTCTGTTCAATGCTTTGTTCTGACCCTAAGCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtccaacaggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG
                 ttttaat  putative branch site (score: 3)
                                     ttgttcccttctattc  putative PPT
              ttgttttaatttctat  TA-rich tract