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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctagcatttcctgcctcagtaattcattaataataaactgtgatatgtagtgttacttggctaacttacatgggaactattgaggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCTTTCAAGATATTATTTGAATAATTTTCATGACGGAGTGCGGCAA

Basic information

species Zea mays
transcript GRMZM2G047894_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047894_T02 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 16
---gtactctagcatttcctgcctcagtaattcattaataataaactgtgatatgtagtgttacttggctaacttacatgggaactattgaggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCTTTCAAGATATTATTTGAATAATTTTCATGACGGAGTGCGGCAA
       | ||||||||  ||   ||  |||   ||  | || ||||||| |  ||    ||   | | ||| |  ||||| ||| | | |  |||||||| ||||||||||||||||| |||||| | ||||||||||| ||||||||||||||| |||||||||||||||||||||||||||||||| | |||
gtaactttttagcatttattgttacaacaataatttgtttatcaactgtggtgcgt----ttgtattgttaaatc-catggcaacaacttaa-taacacagGTATGGAAGGCAGACATTACCTGGATTGATTAAAGATGGCATGAGTGCTCTTTCACGATATTATTTGAATAATTTTCATGACGGAGTGAGACAA

upper sequence: GRMZM2G047894_T02 (Zea mays), 3'ss of exon 16
lower sequence: Vv08s0105g00480.t01 (Vitis vinifera), 3'ss of exon 16
gtactctagcatttcctgcctcagtaattcattaataataaactgtgatatgtagtgttacttggctaacttaca-tgggaactattgaggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCTTTCAAGATATTATTTGAATAATTTTCATGACGGAGTGCGGCAA
       |   |   |||      | ||||   |   ||||  | | | ||  |    ||| |   ||   | || |  | | |  | |  ||   ||||||||| |  |||||  || | ||||| ||||||||||| ||||||||| | |||||||||||||| || ||||| || || ||  | || || 
----gtaaatctcatctgaaattatgattc-caagggataatgtct-acatacatgtgtacctcattataatgcaatttggattgataa--tactgcagATATGGCAAACAGACTATGTCAGGACTCATTAAAGATGGGATGAGTGCTATATCAAGATATTATTTAAACAATTTCCAAGATGGGATTCGACAG
















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|31348859|gb|CD433216.1|CD433216
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|78021557|gb|DV489944.1|DV489944
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|71428422|gb|DR809472.1|DR809472
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|32934739|gb|CF039551.1|CF039551
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|37387638|gb|CF631017.1|CF631017
EST:     GAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: GAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|71325384|gb|DR799369.1|DR799369
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|18385140|gb|BM418339.1|BM418339
EST:     GAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: GAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|17970259|gb|BM277022.1|BM277022
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|12968368|gb|BG265314.1|BG265314
EST:     ATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: ATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|5296286|gb|AI783056.1|AI783056
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|113702249|gb|EE679753.1|EE679753
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|5846902|gb|AI999985.1|AI999985
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|32850672|gb|CD990353.1|CD990353
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCT
EST: gi|60343346|gb|DN210319.1|DN210319
EST:     CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG                         ATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGA
genomic: CTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAGgtactctagc ... ggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgatatgtagtgttacttggctaacttacatgggaactattgaggtaacacagATATGGAAGGCAGACATTGCCTGGACTAATTAAAGATGGAATGAGTGCTCTTTCAAGATATTATTTGAATAATTTTCATGACGGAGTGCGGCAA
                       taactta  TA-rich tract