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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaatcatttgcttctctcagttagtgccggtgggttggttttatgttgtgggtcaaggggccaagaagctcagtttcgtctatactaaaacgg...

Basic information

species Zea mays
transcript GRMZM2G451366_T01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G451366_T03 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os08g01180.1 (Oryza sativa), 5'ss of exon 10
AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaatcatttgcttctctcagttagtgccggtgggttggttttatgttgtgggtcaaggggccaagaagctcagttt--cgtctatactaaaacgg---------
||||||  |||||| ||||||||||||  |||||||||||||||||||||| |||||||||||||| ||||||||| |||| |   ||||  |         || | |||||    | | |||  |    | || | |   |||    | | | |||| | |          
AGAATCAGCAGATGCTGAGTCAGTAATTAGAACTGTCAGATTAGTTTCTGAAAGTCTTGCGgtaagctaaatcatt-gcttgtagaagttcttcat------tttgctttatacactagttcattg----atgatgtttgttttattatttgttctaacatgccccccttgg
















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|60354551|gb|DN221524.1|DN221524
EST:     AGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: AGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32847269|gb|CD986950.1|CD986950
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32841613|gb|CD981294.1|CD981294
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|71440388|gb|DR821438.1|DR821438
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32840746|gb|CD980427.1|CD980427
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|149109482|gb|EE293326.2|EE293326
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|89252033|gb|DY623819.1|DY623819
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32841252|gb|CD980933.1|CD980933
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32839985|gb|CD979666.1|CD979666
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32839499|gb|CD979180.1|CD979180
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGGATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32839696|gb|CD979377.1|CD979377
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|60356118|gb|DN223091.1|DN223091
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32840986|gb|CD980667.1|CD980667
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32841145|gb|CD980826.1|CD980826
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32840104|gb|CD979785.1|CD979785
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32840762|gb|CD980443.1|CD980443
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|78123288|gb|DV541672.1|DV541672
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|60347494|gb|DN214467.1|DN214467
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|71326873|gb|DR800095.1|DR800095
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32863734|gb|CF003416.1|CF003416
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32841116|gb|CD980797.1|CD980797
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32841526|gb|CD981207.1|CD981207
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|32945502|gb|CF050321.1|CF050321
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
EST: gi|60357371|gb|DN224344.1|DN224344
EST:     ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCG                         AGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT
genomic: ATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAAT

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: 99

AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAATAGCAGCTTAGCCATCAATCCTCGCTACGTCCGGTCCTGGTTGGATCTTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 99

AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAATAGCAGCTTAGCCATCAATCCTCGCTACGTCCGGTCCTGGTTGGATCTTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 122

AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAATAGCAGCTTAGCCATCAATCCTCGCTACGTCCGGTCCTGGTTGGATCTTT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 112

AGAATCTACAGATGTTGAGTCAGTAATCCGAACTGTCAGATTAGTTTCTGAGAGTCTTGCGgtaagttaaa ... cttcttacagAGACACATCTATGGATTGAGAGGGAGGAATATCGATGTTTTTGCAGAGAATAGCAGCTTAGCCATCAATCCTCGCTACGTCCGGTCCTGGTTGGATCTTT