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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag

Basic information

species Zea mays
transcript GRMZM2G128877_T03
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatatttt--ttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag--------
|||||| |||||| | |||||||||||||| ||||| || ||||| ||||| || || ||||||||||| || ||||||||||||||||||||||||||||||||  ||  |     | || | ||  |    |||| ||| || || | | | |  |   ||||| ||| | ||||    || |    ||      |||    |||  |         
TGTACTTGATGCATTGTTCCCCTCAGTTCTTGGAGGAACATGTGCCATTCCTGGAGCTTTTGGTTGTGGAAAGACTGTCATTAGTCAGGCACTTTCCAAGgtgatcactattt---ttctattcctcattgccatgtagtatctatagaaactatactctctttttgttgccttgatcacatctttgtactgagatgaatagcctctcaaactctgcag

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
||| || ||||| || |||||||||||||| || || |||||||| || || || || |||||||||||||||||||||||||||||||| ||||| |||||||  |      |||||  | ||   |   | || || ||  || | ||||| |   |  || ||  |  |  |     || | | |  ||  |  ||  |       
TGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATACCTGGAGCTTTTGGTTGTGGTAAAACTGTCATTAGTCAGGCTCTTTCTAAGgtgaacttaatataccct--attaaaacaata-attttttaattgaagatattctccgtaattcatctttttcct----ccacccacccccctgttttggcag------

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
||| || ||||| || |||||||||||||| || || |||||||| ||||| || || ||||||||||||||||| |||||||||||||| ||||| |||||||  |     ||||||  | ||   |     || || ||  |||| ||||| |   |  || ||  |        | ||  | | |  |    |             
TGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTAAGgtgaacttaaaacaccct--aataagacaatg-attttttaattgtagatattctccttaattcatctt--------tttcccccaaccacttgcag------------

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggt-ctcatctagcttcccctaatgttatctgcag
||| || ||||| || ||||| || ||||| || || || ||||| ||||| || || ||||| ||||| |||||||| || |||||||||||||||||||| |  |     ||| || |  |  || ||||| |    |  ||| | | |||   | |       |  | |  |  |  | |  |||                      
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgt-accttgtgacactctctggttttgttccattta--attactggatagattgaatttccaaagctaactttttcttatttacatag----------------------

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtac---atattt----tttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
||| || ||||| || ||||| || ||||| || || |||||||| || || ||||||||||||||||| ||||| ||||| ||||| || ||||| |||||||  |   ||     |    |    |   | ||  | |  |  ||     |  |     ||  ||  |||||   ||  |  |   || | |  |   |  |||| |  |||||
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTCGGTGGAACTTGTGCCATACCTGGGGCATTTGGTTGTGGAAAAACAGTCATCAGTCAAGCTCTTTCTAAGgtgagcttgtcttttattcacttgggaccagacatcctttgacaatattaggtgctacaaattctttccttattcatcttgtacttaaatgttgtgtgtac--atgt-acatgcag

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtg-atttctcctcaccctttactactgctccatatgttgta-gctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
||| || ||||| || || |||||||| ||||| || |||||||| ||||| ||||||||||| ||||| ||||| ||||| ||||| || |||||||||||| ||||||| |     |||||||    |   | | |  || | || | ||| || |||| | | | | ||   |||   |    || | ||  ||      || |||||
TGTTCTCGATGCTCTCTTTCCCTCAGTCCTGGGTGGGACTTGTGCAATTCCTGGGGCATTTGGCTGTGGGAAAACAGTCATCAGTCAAGCTCTTTCCAAGgtgtatttctcatt--tgtttactaggcttttgtttttaatatgttggaaataattcttctatctcagtctc---atgcattagcataacatctact-----catttgcag

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgt-tgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag-------------------------------------------------------
| |||||||||| |||||||| || ||||| ||||| ||||| || ||||| || |||||||| ||||| || |||||||||||||| || || || |||||  ||  |   || |  ||   | |  || |  |   | | ||   | | |||||||||||||  ||    || | || |  |  |||| |    | | || | || ||                                                       
TATACTGGATGCTCTATTCCCTTCTGTTCTTGGAGGTACTTGCGCCATTCCTGGTGCATTTGGATGTGGAAAGACTGTCATTAGTCAAGCGCTCTCTAAGgtagttggtta-catctgtttggatttttcgaagttcatttcgcatcatacattttttctttttcttttctttggttgtgtatttaagctgcagaaactattgtttgaagtttgtatgaaagttctggaacgaggcttattttttgcaaatttgtttgtgtgcag

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagc--tgtacatattttttcttttttattgtcctgatggtctc---atctagcttcccctaatgttatctgcag---------------------------------
| | |||||||| ||||| || || || || ||||| || ||||| ||||| || || || |||||||| ||||| || ||||||||||| || || |||||||||   | ||||| | |  |  |     | ||  |  |||   ||   | |||    |  |||||||   ||||   ||    ||   ||   |  | | | | ||                                      
TATTCTGGATGCTCTATTTCCATCTGTCCTCGGAGGTACCTGTGCAATTCCTGGTGCGTTCGGTTGTGGGAAAACAGTTATTAGTCAGGCTCTGTCAAAGgtgattgg-cttcaccttattgtgtttggagacatagtaaagcatcgtctttgtttaccataatttattgggttgataagctgcagatactgcgagctgtcacgatttccttgaaatggttctaattttatgtgctgctgtgtgcag

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 10
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
  |  ||||||| || || || || || ||||| || || ||||||||||| || |||||||| ||||| || || || ||||||||||| ||||| ||||| ||||    |     | || | | |   |  |  ||||      |||                                                            
CATTTTGGATGCGCTGTTTCCTTCCGTGCTGGGGGGAACGTGTGCTATTCCGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgt-atttggagttcttttgtaatgc-gtgactaactttgtcatgaaacag-----------------------------------------------------------

upper sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 9
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggtctcatctagcttcccctaatgttatctgcag
  |  ||||||| || || || || || || || || || ||||||||||| || |||||||| ||||| || || || ||||||||||| ||||| |||||  ||     |||   | || | | |   |  |  ||||      |||                                                            
CATTTTGGATGCTCTGTTTCCTTCCGTGCTAGGGGGAACCTGTGCTATTCCGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggagttcatt-tgtaatgc-gtgactgactttgtcatgaaacag-----------------------------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|13516146|gb|BG518422.1|BG518422
EST:     CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAG                         TACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGCGGTGAACGAGGAAAT
genomic: CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctc ... ttatctgcagTACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGTGGTGAACGAGGAAAT
EST: gi|116813623|gb|EC856086.1|EC856086
EST:     CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAG                         TACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGTGGTGAACGAGGAAAT
genomic: CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctc ... ttatctgcagTACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGTGGTGAACGAGGAAAT
EST: gi|31360171|gb|CD444528.1|CD444528
EST:     CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAG                         TACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGTGGTGAACGAGGAAAT
genomic: CAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctc ... ttatctgcagTACTCCAATTCTGAAGCTGTGGTTTATGTGGGCTGTGGTGAACGAGGAAAT