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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcatgctaggatcagtcttatccttttggacagagccttaatttgtctctagtttatatacgctattactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA

Basic information

species Zea mays
transcript GRMZM2G031802_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031802_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g28340.1 (Oryza sativa), 3'ss of exon 3
tatcatgctaggatcagtcttatccttttggacagagcct--taatttg---tctctagttt---atata-cgctattactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA
    ||| || | |   ||||  | |||||  |||   ||  || ||||   | ||||||||   |||||  |||||  || || |  |||   ||||| | |||||||||| ||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| || || |||||||
---gatgttatgttggatctt--cattttgttcagtttcttgtattttgccatttctagtttctgatataatgctatctctcaa-cacatt---ttggtgatgatgcagTGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA

upper sequence: GRMZM2G031802_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G46570.2 (Glycine max), 3'ss of exon 3
tatcatgctaggatcagtcttatccttttggacagagccttaatttg---tctctagtttatatacgctattactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA--------------------------
 ||  |  || | |  ||   |  | |||| |       ||  ||||   ||  |   | ||| |    ||   || |      |    ||| | | ||||||||| ||| | |  || || || || |||||||| || || ||||| ||||||||||| |||||||| |||||||                          
-attcttataagctt-gttcaactcatttgaagtttttgtttgtttgaagtccgtgaatcataaaattcatgtttataatactattgtctggct-caatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGAGCCCCACTTTGTCCATTGGATAAGTATGATTCTCTCTTATTGTGTTTTA

upper sequence: GRMZM2G031802_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G46570.1 (Glycine max), 3'ss of exon 3
tatcatgctaggatcagtcttatccttttggacagagccttaatttg---tctctagtttatatacgctattactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA
 ||  |  || | |  ||   |  | |||| |       ||  ||||   ||  |   | ||| |    ||   || |      |    ||| | | ||||||||| ||| | |  || || || || |||||||| || || ||||| ||||||||||| |||||||| |||||||
-attcttataagctt-gttcaactcatttgaagtttttgtttgtttgaagtccgtgaatcataaaattcatgtttataatactattgtctggct-caatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGAGCCCCACTTTGTCCATTGGATAA

upper sequence: GRMZM2G031802_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G25040.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------tatcatgctaggatcagtc-----ttatccttttggacagagccttaatttg-----tctctagtttatatacgct-attactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA
                                                     | || ||   ||||   ||      | | || |||   |   |  ||||||       ||||   ||  ||||    ||| ||| | |       ||   ||    ||||| |  |||||||   | || ||||| |||||||| ||||| |||||||||||||| || ||||| ||||||||||
gtacgatcttctttccataacttccctttacttgaaatttatcgttgcgtcgttctcttgactggatacatcattgactgttctcttgccaaactctataatttagtttccctctgagtttcatacttcgattgctataccaataatgctctcttct--tgcagGGGGTACCGTGGATTATACATCCTCAACTGGATCTACCGTTACTTCACTGAGCCGCACTTTGTTCACTGGATAA

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|166487095|gb|EG283683.1|EG283683
EST:     CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACT
genomic: CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACT
EST: gi|5361053|gb|AI795668.1|AI795668
EST:     CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
genomic: CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
EST: gi|71425662|gb|DR806812.1|DR806812
EST:     GGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
genomic: GGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
EST: gi|211132529|gb|FL458973.1|FL458973
EST:     CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
genomic: CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
EST: gi|60356812|gb|DN223785.1|DN223785
EST:     CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
genomic: CGGACAAGGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
EST: gi|71425663|gb|DR806813.1|DR806813
EST:     GGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGG                         TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA
genomic: GGAATATTGACAACCTGACTGGCCAATATGTCTTCTTCTTGGGgtaagagatc ... tacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctctagtttatatacgctattactaaagctgattcacttggttacgatgcagTGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAA
      tagtttatata  TA-rich tract