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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtcatcctgtttccttcctgatgatgtgctttggtgtaatgcaatgcaatgctgcctgggctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA

Basic information

species Zea mays
transcript GRMZM2G437859_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G437859_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g55500.2 (Oryza sativa), 3'ss of exon 11
gttggtcatcctgtttccttcctgatgatgtgctttggtgtaatgcaatgcaatgctgcctgggctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA
|||||| | ||||   | |  ||||||  | |       |  |     |    |  || ||         |||||  | ||||| ||||| || |||||||| |||||| | ||||| |||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| || || || ||
gttggttaccctgcgccat--ctgatg-cgagtaaatacgccactgtttttgttcttgtctcacacatttgctttgtt-tgactttcagCGGCAGTGGGGCTCTCCTTCTTGCAGTTTACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGTGTCTCCATCTTTCTTGGCCTATCTGTGCCCGA

upper sequence: GRMZM2G437859_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA08G12360.1 (Glycine max), 3'ss of exon 13
----------------------gttggtcatcctgtttc-cttcctgatgatgtgctttggtgtaatgcaatgcaatgctgc-ctgggctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA
                        |    | |    |   | |  | || || |    |  | | || |  |    |||     |  |   |  |||  | |     |  ||||| | ||||||||||| ||  |||||||||||||||||||||| ||| | |||||||||||    ||||| ||| ||||| | ||  ||||| | || ||
gtgagtaccaccaactaaactaactaactaactaactaagcctttttattatatatacta-tttgattccttcttctgccttgttatgacaattgctaattttgtttttgcagCTTCTGTGGGGCTGTCATTTTTACAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTTGTGGCGTTTCCCTCTTCTTAGGTTTGTCCATTCCTGA

upper sequence: GRMZM2G437859_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA06G06840.1 (Glycine max), 3'ss of exon 11
gttggtcatcctgtttccttcctgatgatgtgctttggtgtaatgcaatgcaatgctgcctgggctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA
||  ||    |  ||||     || |   ||       |||  |    | |  |      |    ||||   |||||||| | |  ||||| | |||||||| || ||| | |||||||||||||||||||| ||| | |||||||||||  | || ||  || | ||| | ||  | || || || ||
gtgagtatcaccatttcacctatggtttagtttaagcatgtctttgcttcctctatctttttta-tgacaa-ttttctct-atttgcagCTTCTGTGGGGCTATCATTCTTGCAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTCTTGGTGTAGCCCTTTTCTTAGGTTTTTCTGTTCCTGA

upper sequence: GRMZM2G437859_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA04G06750.1 (Glycine max), 3'ss of exon 11
gttggtcatcctgtttccttcctgatgatgtgctttggtgtaatgcaatgcaatgctgcctggg-ctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA
||  ||    |   |||  |||||  | |  | ||     |            |    | |    || ||    ||  | |   |  ||||| | |||||||| || ||| | |||||||||||||||||||| ||| | ||||||||||| || || ||  || | ||| | ||  | || || || ||
gtgagtatcaccacttc--tcctgtggtttagtttaaacatctctttgcttcctctatcttatttctaacaagcttatttt--tttgcagCTTCTGTGGGGCTATCATTCTTGCAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTGTTGGTGTTGCCCTTTTCTTAGGTTTTTCTGTTCCTGA

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|91049744|gb|EB160162.1|EB160162
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|211379070|gb|FL028411.1|FL028411
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTC
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTC
EST: gi|149071735|gb|EE160128.2|EE160128
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|76287139|gb|DV026707.1|DV026707
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|71759661|gb|DR957598.1|DR957598
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|50337437|gb|CO532563.1|CO532563
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|50337438|gb|CO532564.1|CO532564
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|76287138|gb|DV026706.1|DV026706
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
EST: gi|71310985|gb|DR791794.1|DR791794
EST:     CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTG                         CTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA
genomic: CCCGTTCACCATCTTTGCGGCCGTGTACTGCGTCCTGTTCGGGCTAGTTGgttggtcatc ... tgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggtgtaatgcaatgcaatgctgcctgggctgacggcttttctctgactctcagCTGCGGTGGGGCTGTCCTTCCTACAGTTCACTAACATGAACTCCATGCGCAACCTCTTTATCGTCGGCGTCTCCATCTTCCTTGGCCTGTCCGTCCCGGA
                                          ctctgac  putative branch site (score: 3)
                                     cttttctctgactctc  CT-rich tract