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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtttctgtcctccacttgtcgttcccttccgccctacctccctccctccaaactgtaacagctgcatattttctcctctctctctctcgttttccccctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT

Basic information

species Zea mays
transcript GRMZM2G019986_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g52370.2 (Oryza sativa), 3'ss of exon 11
gtatggtttctgtcctccacttgtcgttcccttccgccctacctccctccctccaaactgtaacagctgcatattttctcctctctctctctcgttttccccctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT
|||||  |||| ||||    || ||  ||||| | |      ||  |||  |      | ||||| | |||| || |   ||| ||                       |||| ||| |||| ||||||||| |||| || ||||| ||||| || |||||||| ||||||||||||  
gtatg--ttctatcctttgtttctcaatccctcctggttgcactttctct-tgaggtgtataacaaccgcatgttcttatctcactgc---------------------agATTTGCTTGCATATGTTCACTTTGGATTTTTTGAATCAAGTAGCAAACAGCCTTGAGAAGGACAGTAC
















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|149111355|gb|EE294858.2|EE294858
EST:     CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|78089271|gb|DV517645.1|DV517645
EST:     AGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: AGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|211210620|gb|FL436849.1|FL436849
EST:     GGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: GGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|110497708|gb|EE015394.1|EE015394
EST:     ATCAATCAGTCGACAGGGGGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: ATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|16379775|gb|BI993142.1|BI993142
EST:     CGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|71774723|gb|DR972601.1|DR972601
EST:     CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|148935255|gb|EC879292.2|EC879292
EST:     GAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: GAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|149102321|gb|EE287688.2|EE287688
EST:     ATCAATCAGTCGACAGGGGGACTCCGTTACTGCGGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: ATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|18166601|gb|BM336440.1|BM336440
EST:     AGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: AGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|40335845|gb|CK369915.1|CK369915
EST:     CTACTGAGATCAATCAGTCGACAGGACGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|67018099|gb|CO446848.1|CO446848
EST:     CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|37375243|gb|CF624047.1|CF624047
EST:     CTACTGAGATCAATCAGTCGACAGGACGACTCCGTTACTGCTGGAGCAAC                         ATCTGCNTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|17931736|gb|BM268696.1|BM268696
EST:     CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CTACTGAGATCAATCAGTCGACAGGGCGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
EST: gi|40303710|gb|CK348097.1|CK348097
EST:     CGACTCCGTTACTGCTGGAGCAAC                         ATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC
genomic: CGACTCCGTTACTGCTGGAGCAACgtatggtttc ... cctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtaacagctgcatattttctcctctctctctctcgttttccccctcccctagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT
 ctgtaac  putative branch site (score: 3)
               tattttctcctctctc  putative PPT
              atattttct  TA-rich tract