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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAATCTTGTACGATAACATATGGTTCTGGGCAAATCGCTGGCTTCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgctcacagaattcctcaattaaatgttcctatccatcattgttagtgataatagtactgctttttgttcag

Basic information

species Zea mays
transcript GRMZM2G077233_T05
intron # 4
splice site 5'
intron type U2

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|6989633|gb|AW447846.1|AW447846
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATT-ATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTG
EST: gi|211504863|gb|FL422036.1|FL422036
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGTAACCTTGTTGTGCAAAATCAG                         AAATTTATTGA
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGA
EST: gi|8367213|gb|BE050158.1|BE050158
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|76291015|gb|DV030583.1|DV030583
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|211068181|gb|FL270394.1|FL270394
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGTAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAAC-AGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|211373714|gb|FL377783.1|FL377783
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|76289740|gb|DV029308.1|DV029308
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|60357617|gb|DN224590.1|DN224590
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCGGCCCTACTTTTC-TCATTGGGAA
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTT-CATCATTGGGAA
EST: gi|101393193|gb|EB818527.1|EB818527
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|32851441|gb|CD991122.1|CD991122
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|211384115|gb|FL248478.1|FL248478
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|67034446|gb|CO462996.1|CO462996
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGTAACCTTGTTGTGCAAAATCAG                         AAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG
EST: gi|91876413|gb|EB406370.1|EB406370
EST:     TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAG                         AAATTTATTGGGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGGAG
genomic: TCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 388

GAGAATCTTGTACGATAACATATGGTTCTGGGCAAATCGCTGGCTTCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAGTTTGATGGAATTCTTGGTCTCGGATTTCCTGAAATTTCTGTAGGAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 500

GAGAATCTTGTACGATAACATATGGTTCTGGGCAAATCGCTGGCTTCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAGTTTGATGGAATTCTTGGTCTCGGATTTCCTGAAATTTCTGTAGGAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 576

GAGAATCTTGTACGATAACATATGGTTCTGGGCAAATCGCTGGCTTCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAGTTTGATGGAATTCTTGGTCTCGGATTTCCTGAAATTTCTGTAGGAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 564

GAGAATCTTGTACGATAACATATGGTTCTGGGCAAATCGCTGGCTTCTTCAGTGAGGACAATGTGTTGGTTGGCAACCTTGTTGTGCAAAATCAGgtaaactgct ... ttttgttcagAAATTTATTGAGACAACTCGAGAAACCAGCCCTACTTTCATCATTGGGAAGTTTGATGGAATTCTTGGTCTCGGATTTCCTGAAATTTCTGTAGGAGGAG