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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacagttttctccaatatgatgataactaccatgtagattttgaacagctcagtctgctagcctcttatgctttgttcctttgcttgcatatccatctatag

Basic information

species Zea mays
transcript GRMZM2G181151_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 3
AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacagttttctccaatatgatgataactaccatgtagattttgaacagctcagtctgctagcctcttatgctttgttcctttgcttgcatatc-catctatag
||||||||||||| ||||||||||| || |||||||||||||||||||||||||||||  || |   | |  |              ||||     | ||||| |||||   | |||| ||||   |||| ||  |    | |   | ||| |  | |||  ||
AGTACAGGACTGTTTCTGGTGTGGCAGGACCTCTGGTTATCTTGGATAAAGTAAAGgtacgtgctactgttcct-------------ctac-----aaattttcaacagactaatctggtagcaagttatactgagcatttctttcttcatgtaacttcttcag
















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|33102148|gb|CF062108.1|CF062108
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211464055|gb|FL062026.1|FL062026
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|32919410|gb|CF024222.1|CF024222
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211464049|gb|FL062020.1|FL062020
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211045587|gb|FL062119.1|FL062119
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|31664290|gb|CD573015.1|CD573015
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211474170|gb|FL062078.1|FL062078
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|33100953|gb|CF060913.1|CF060913
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211223693|gb|FL399500.1|FL399500
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211279000|gb|FL407011.1|FL407011
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211469118|gb|FL062056.1|FL062056
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211476688|gb|FL062089.1|FL062089
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211466586|gb|FL062037.1|FL062037
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211131888|gb|FL371457.1|FL371457
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211471640|gb|FL062065.1|FL062065
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|8367004|gb|BE049949.1|BE049949
EST:     CGACTGTATCTGGTGTGGCCGGGCCTCTGGCTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATCGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211332062|gb|FL381794.1|FL381794
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|32851420|gb|CD991101.1|CD991101
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211124910|gb|FL425297.1|FL425297
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGAAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|33100666|gb|CF060626.1|CF060626
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCAAT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211461534|gb|FL062016.1|FL062016
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211045584|gb|FL062116.1|FL062116
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211132918|gb|FL391883.1|FL391883
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211029340|gb|FL373997.1|FL373997
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|9953932|gb|BE640515.1|BE640515
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTATTG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211172669|gb|FL375066.1|FL375066
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211464053|gb|FL062024.1|FL062024
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211439866|gb|FL422480.1|FL422480
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211427007|gb|FL427232.1|FL427232
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211034220|gb|FL370384.1|FL370384
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211459002|gb|FL061993.1|FL061993
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211332674|gb|FL416300.1|FL416300
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211466587|gb|FL062038.1|FL062038
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211466594|gb|FL062045.1|FL062045
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|211448189|gb|FL410292.1|FL410292
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
EST: gi|24462502|gb|BM660033.1|BM660033
EST:     GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAG                         GGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT
genomic: GGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACT

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: 48 (upstream exon), 49 (downstream exon)
Score: 1335

AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1691

AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 869

AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1849

AGTACAGGACTGTATCTGGTGTGGCCGGGCCTCTGGTTATCTTGGATAAAGTAAAGgtgtgtacag ... ccatctatagGGCCCAAAGTACCAAGAAATTGTAAACATCCGACTTGGAGATGGCACCACTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG