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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA

Basic information

species Zea mays
transcript GRMZM2G173700_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
              | || |||   | ||  ||  ||| |  ||| |  || | | ||||   |||   | ||||| ||  || ||| | | ||||||||||||||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| |||||||||||||| ||||| || |||||||| || ||||||||
-------------gtatatttttttacaa--tggaaatctggtataagcttatct-gtgtgcaaat---aaattctaatacttatctttcaatttacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
----------------------------------------------gtatgttgttttcttttaatttaaaagaaattgataa--tttaatatcacattttgtag---tgttataatctgatatt---ctgattatt----ctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
                                                |  || |||  || ||||   |   |  |  |||   |  ||| ||   || | | |   | ||| | | |  | ||    ||||| ||    |||||  ||  | |||||||||| | | ||||||||||| |  | || |||||||| || ||||| || || || ||||| ||||| ||||||||||||||||| || ||||||||
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactcta-aatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA

upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 12
-----------------------------------gtatgttgttttcttttaatttaaaagaa--attgataatttaatatcacattttg-----tagtgttataatctgatattctgatt------attctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
                                    |||| | ||   || |  |||    ||   ||     | || ||   |||| | |     || | ||||| |   ||   |   ||      ||  | |    | || ||||||| || ||||| ||||||  ||| ||| |  | ||||| || ||||| | ||| |||||||| ||||||||||||||||| || || || ||||||||
gtgtgttcatctgttaccggttctgttatatatccttatgcttttcagttctgttttgtgtgatctatgcgagaattcatggtacatctcgagaaataatattatattgatatcaccaagttcatttgatattttggattcttgcagCTGACGTCTTTTCAGACATAAGACCGCTGGTTAGGTCAGTACTTGATGGGTACAATGTTTGTATATTTGCATATGGCCAGACAGGATCAGGGAAAACTTA

upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
    |||     || ||    |   |   ||||     |||   |     | | || | |   |   | |||| ||||  ||    |||  || |  ||  |||||||| |  || |  | |||| | || |||||  |||| ||||| |  || |||||||| ||||| ||||| |||||||||||||| ||||||||
----gtttaaacctctttccctcttatgtattg-----ttagcgttttcctctataatatatgatattcatatcctga--atctgttatc-ttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA

upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
---------------------gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgatt-ttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
                     | || ||  ||   | || |||       |||| |   ||  |   ||   |   |    | |||| |  |  | | ||| |    | | ||| || |||||||||| ||||| || ||| |||| || || ||||||||||| || || | ||| || ||||| ||||||||||| ||||| || || || ||||||||
gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaat-taatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA

upper sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
                                              || || | ||   || |  ||  ||| ||  | |       | |    | |||  |||||||||   ||    || ||  |||| ||||| || || ||||| |||||||| ||||||||||| ||||| |||||||||||||| ||||| ||
--------------------------------------------gtacgttctata---ttttgctccaatagtcacaatga----cacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA
                            ttctgat  putative branch site (score: 3)
               ttataatctgatatt  TA-rich tract