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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG

Basic information

species Zea mays
transcript GRMZM2G181151_T02
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 11
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
|| ||||  ||| | || | || |||||| | | ||  || |      |   |   | ||       |  || |||    |  | |        |||| |  || ||   || ||   ||  |  | ||  | |||||||||||               ||   |  || |  ||   ||        |||||||| || ||||| ||||||||| |||||||||| |||||||||||||||
gtactttcttttctgttcttttattgagt-agcaaagattttcttggtaagagtaactggc------tgcttcatactccacctcaa-------tattatgacacatg-aatgtaacttaatagatcttc-tatattttttact---------------ctacctcaatattttcttgttac------tttcagATATACCCACCCATCAATGTCTTGCCATCTCTCTCTCGATTGATGAAG

upper sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 11
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatat-agaatatgaagtatttgtttattttttactacct----tgatagcttatctgtgttgatgtgatcacattttattttattt---cagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
                                                            |  |   | | ||  | | |   ||| || | || || ||||   ||    | | |  ||| ||  || || ||    ||| |          ||  || || |  |  || |  |||||  || | ||  |  |    ||||| || |||||||||||||| ||||||||||| || ||||||||||||
---------------------------------------------------------gtattggttctaacttcgagccaggcttaacaatactcatattcttgcatccagtttcatcataggagatacttcttcccatttgatcgttagtgatggaaggttgtaagcctttagttgatctaatgtaatgatgatgatgcagATCTACCCACCTATCAATGTGCTGCCATCTCTGTCGCGATTGATGAAG

upper sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 11
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
                                                                                                                                  |||| |  |    ||  |||  ||  ||  |||     ||   |      |  || | |||||||| |||||||||||||| ||  ||||||| || ||||| |||||||||
----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacactgctctt-tggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG

upper sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 11
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 10
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
                                                                                                                                  |||| |  |    ||  |||  ||  ||  |||     | |         |  || | |||||||| |||||||||||||| ||  ||||||| || ||||| |||||||||
----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacact-tctctttggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG

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|60355003|gb|DN221976.1|DN221976
EST:     GGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: GGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|16925493|gb|BM078561.1|BM078561
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|32945219|gb|CF050038.1|CF050038
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|60343435|gb|DN210408.1|DN210408
EST:     GACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: GACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|60352479|gb|DN219452.1|DN219452
EST:     GGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: GGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|6973468|gb|AW438162.1|AW438162
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|67019767|gb|CO448516.1|CO448516
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|33101769|gb|CF061729.1|CF061729
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCCCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|194716931|gb|FK934090.1|FK934090
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|211222467|gb|FL437623.1|FL437623
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|60394888|gb|DN227757.1|DN227757
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|67015926|gb|CO444675.1|CO444675
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|33101431|gb|CF061391.1|CF061391
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGCCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|213188201|gb|FM181912.1|FM181912
EST:     AGGCAGCTCNNTAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: AGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|60395817|gb|DN228687.1|DN228687
EST:     TTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: TTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|24767815|gb|CA402951.1|CA402951
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCGTCTCTCTCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|32944615|gb|CF049434.1|CF049434
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|60396754|gb|DN229618.1|DN229618
EST:     GGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: GGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|37401251|gb|CF637988.1|CF637988
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|33094143|gb|CF054137.1|CF054137
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|32933748|gb|CF038560.1|CF038560
EST:     ACATTGCTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|32942169|gb|CF046988.1|CF046988
EST:     ATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|32931582|gb|CF036394.1|CF036394
EST:     ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: ACATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
EST: gi|211222468|gb|FL437624.1|FL437624
EST:     CATTACTGGGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAG                         ATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
genomic: CATTACTGAGGGACAGATATACATTGATAGGCAGCTCCATAACAGACAGgtgcttttct ... tttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
                       tgttgat  putative branch site (score: 4)
                                       ttttattttatttc  putative PPT
                               tgatcacattttattt  TA-rich tract