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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggaactgaagctgaagtgctgaaataatcctgtattttatatttgtattttacttggttcaaatcatgcaggtatgtgaatgtatggtttctgaattctaagctttggtggtgaatcttcatctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTACTTTGTTTGCATTTTTCTCTGGTTACTCTACTTGCTC

Basic information

species Zea mays
transcript GRMZM2G008611_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G008611_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g40510.1 (Oryza sativa), 3'ss of exon 5
gtttggaactgaagctgaagtgctgaaataatcctgtattttatatttgtattttacttggttcaaatcatgcaggtatgtgaatgtatggtttctgaattctaagctttggtggtgaatcttcatctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTACTTTGTTTGCATTTTTCTCTGGTTACTCTACTTGCTC
             | ||     |||||| | |  |  || || | |||| | ||   ||| |    |   |    |||  ||    | ||  || | ||   | ||||||| || ||  | |||||   |||||| |||||||||||||||||||| ||||||||||||||||| || |||||| |||||||||| |||||| |||| |   | | ||||||
-------------gttggga-actgaaaaactgttaaatgttct-tttgcaatta--ttgttctgtactgtctgtgtacatgtgaatctgagttattaaaattgagctttgctgatgtctgttcattcttgcagGCCATTTTAATATTTTTGTTGGCGATCTTTGCCCGGAAGTAACAGATGCTGCTTTGTTTGCTTTTTTCGCTGGATTTACCAGTTGCTC

upper sequence: GRMZM2G008611_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv11s0016g00700.t01 (Vitis vinifera), 3'ss of exon 5
gtttggaactgaagctgaagtgctgaaataatcctgtattttatatttgtattttacttggttcaaatcatgcaggtatgtgaatgtatggtttctgaattctaagctttggtggtgaatcttcatct-----atgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTACTTTGTTTGCATTTTTCTCTGGTTACTCTACTTGCTC
                     |   | ||| |  | ||||||   |   | |||| ||      || |  | |||  || |   |||    ||||   |||  || |  || |  | || ||||||||     ||||||||||||  |||||||||||||| |||||| |||| || || || ||||||||  ||||||||| |||||||| |||  |||  || ||
---------------------gtatatatatttgtttattttg-gtacatttttttctgaa---aattggtccagtaatttccctgttccttttc---attacaaac--tgattatcaaacttcatctttggcatgcagGTCATTACAATATTTTTGTTGGTGATCTTAGCCCTGAGGTTACAGATGCTACACTGTTTGCATGTTTCTCTGTTTATCCTAGCTGTTC

upper sequence: GRMZM2G008611_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 3'ss of exon 5
gtttggaactgaagctgaagtgctgaaataatcctgtattttatatttgtattttacttggttcaaatcatgcaggtatgtgaatgtatggtttctga-attctaagctttggtggtgaatcttcatctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTACTTTGTTTGCATTTTTCTCTGGTTACTCTACTTGCTC
||| |   ||| || | || |      ||||   |   | ||||  | | |    |  || |||     ||| || | || | ||  ||  ||  |||  || ||  |||   || ||          | || |||||| || || ||||||||||| |||||  |||| || || ||||||||||| ||||||||||  || |||| ||   | | ||| ||
gttggtttctgtagtttaattctatgcataagtttcactcttatgct-gca----aactgattc----tatggagttttg-gcattcatcattgttgatgttgtattcttgtatgatg---------ttgtgtagGTCACTTCAACATTTTTGTTGGTGATCTCAGCCCTGAGGTTACTGATGCTACATTGTTTGCATGCTTTTCTGTTTTTCCCAGTTGTTC

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|32927422|gb|CF032234.1|CF032234
EST:     ACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: ACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32940921|gb|CF045740.1|CF045740
EST:     TACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: TACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32927656|gb|CF032468.1|CF032468
EST:     ACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: ACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32927013|gb|CF031825.1|CF031825
EST:     ACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: ACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32850873|gb|CD990554.1|CD990554
EST:     GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|6270004|gb|AW157975.1|AW157975
EST:     GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGACACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32927394|gb|CF032206.1|CF032206
EST:     GTACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: GTACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32928740|gb|CF033552.1|CF033552
EST:     ACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: ACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|33092403|gb|CF052397.1|CF052397
EST:     GTACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: GTACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32846545|gb|CD986226.1|CD986226
EST:     ACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: ACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32928010|gb|CF032822.1|CF032822
EST:     TACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGGTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: TACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
EST: gi|32850928|gb|CD990609.1|CD990609
EST:     GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGGCACATCAG                         GTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA
genomic: GATTAAAGTCAATTGGGCATATACAAGTACTCCGAGGGAGGGCACATCAGgtttggaact ... atctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaatgtatggtttctgaattctaagctttggtggtgaatcttcatctatgcagGTCATTTTAATATTTTTGTTGGGGATCTTTGCCCGGAAGTCACTGATGCTACTTTGTTTGCATTTTTCTCTGGTTACTCTACTTGCTC
                                        tcttcatct  CT-rich tract
                  aattctaa  TA-rich tract