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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT

Basic information

species Zea mays
transcript GRMZM2G102156_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g14770.1 (Oryza sativa), 3'ss of exon 4
gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
                         ||  ||   | |||||||||     |  |      ||| |  ||| |   ||| |  || |  |||     |||| | | |  ||       |||| |  |||       ||| ||||||||||||||   |||||||||||||||         |||||||| ||||||||||||||||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||||||||||||||| |||||||||| || ||| ||| |||
-------------------------gttattgtctacacatcttccatcatccgt-----gaaatttcttgt---cttctcgtttgctaagggaactattgttagtagtgtt---ttatttctaaagctctg-tatgttgaacttttgacaggcaatttttgtagcctaaa--------tttctctttgctcattagATTGAACTTGCAAGAGATATGGGTTATGCTGCTGCAAGGTATGGTCATGTGATGTTTCCAGAGAATGTTCATGAACCTGCTCTTCGTTGTGCAGAACTTT

upper sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g14770.1 (Oryza sativa), 3'ss of exon 4
gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
                         ||  ||   | |||||||||     |  |      ||| |  ||| |   ||| |  || |  |||     |||| | | |  ||       |||| |  |||       ||| ||||||||||||||   |||||||||||||||         |||||||| ||||||||||||||||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||||||||||||||| |||||||||| || ||| ||| |||
-------------------------gttattgtctacacatcttccatcatccgt-----gaaatttcttgt---cttctcgtttgctaagggaactattgttagtagtgtt---ttatttctaaagctctg-tatgttgaacttttgacaggcaatttttgtagcctaaa--------tttctctttgctcattagATTGAACTTGCAAGAGATATGGGTTATGCTGCTGCAAGGTATGGTCATGTGATGTTTCCAGAGAATGTTCATGAACCTGCTCTTCGTTGTGCAGAACTTT

upper sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 4
gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
                                                                                          | |    | | |   ||   | |   ||  || || |||     |  ||  |   |         |||  | ||   |  || | |    ||    | | |  | ||| ||||||||| || || ||||| |||||||| ||||||| ||| ||||| ||||| || ||||||||||||||||| ||  |  ||| ||| ||  |||
------------------------------------------------------------------------------------------gataccaactatg-tttggcatatttaaacttggttgcccc--ttcatgatatcatctctccagttttcctttaa--tgcaatctttccatttaggtgatt--tcagACTGAACTTGCTAGGGAGATGGGATATGCTGCTGCAAGATTTGGGCATGTAATGTTCCCTGAGAATGTTCATGAGCCAGCCTTGAATTGTGCTGAGCTTT

upper sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
                                                                                          |||| ||  |||   |  || ||   |||  ||| |   ||      |  ||  | ||   | |  ||| | |   ||       |    ||   |    |||   |||||| |||||||||||| |||| |||||||| ||||||| ||| ||||| |||||||| ||||||||| ||||||| ||| |  | | ||| ||| |||
------------------------------------------------------------------------------------------gttgagt-ctttgcataatgccag--aatcattg-attttatttgcttcaaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttca---gATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
                              ccctaaa  putative branch site (score: 3)
                                     cttctctttactcatt  CT-rich tract
             ttttttgta  TA-rich tract