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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttgtattctatgttcttgttgcttttctaattacatgtgaattgtgatatccaagggttatggtcagcaaagacaccaatgtaaatgactagtccatttgccgttttaacattttcttcaagagctgttcccttctctatcagtgacatgacacatgggtacatttacactctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG

Basic information

species Zea mays
transcript GRMZM2G024933_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024933_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g31700.1 (Oryza sativa), 3'ss of exon 3
gttagttgtattctatgttcttgttgcttttctaattacatgtgaattgtgatatccaagggttatggtcagcaaagacaccaatgtaaatgactagtccatttgccgttttaacattttcttcaagagctgtt-cccttctctatcagtgacatgacacatgggtaca--tttacactctgttc---agGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG
                                                                                          | |   ||||  ||  |  |||  |  |    |      ||||| |  ||||||| || |||  |||     |  || |    |  | | |||||   ||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||||| || || ||||| || || || ||| |  |||
------------------------------------------------------------------------------------------tcaaatgtcctcttctctatttgtctctgagctattagcctgttacttttctctagcattgaagtgaggagagtttatagccctgtattttgttctccagGCAAACATGCTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTCAGGAGATTGGTTTTAGCCTCGTAGTCTACCCATTGTCCCTGATTG
















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|60341886|gb|DN208859.1|DN208859
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|78026194|gb|DV494581.1|DV494581
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|24769243|gb|CA404372.1|CA404372
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|113703278|gb|EE680782.1|EE680782
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|31364216|gb|CD448571.1|CD448571
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|76293357|gb|DV032925.1|DV032925
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|18172482|gb|BM347870.1|BM347870
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|44901416|gb|CK827961.1|CK827961
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|211229302|gb|FL468746.1|FL468746
EST:     TAGAAGAGATGAAAGCATTTTGTGC-GTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|1298605|gb|W21669.1|W21669
EST:     AGAAGAGATGAAAGCATTTTGTGCGGTTGCCAC-AGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: AGAAGAGATGAAAGCATTTTGTGCGGTTGC-ACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|38688331|gb|CK145362.1|CK145362
EST:     GGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: GGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|30031545|gb|CB833396.1|CB833396
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|5455707|gb|AI833397.1|AI833397
EST:     TAGAAGAGATGAAAGCATTTTGT-CGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60351705|gb|DN218678.1|DN218678
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|51592996|gb|CV072142.1|CV072142
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTNNAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|211354730|gb|FL460388.1|FL460388
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|149004805|gb|EE039309.2|EE039309
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60350437|gb|DN217410.1|DN217410
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|149095031|gb|EE180630.2|EE180630
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|71308603|gb|DR790541.1|DR790541
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|149103697|gb|EE289099.2|EE289099
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60341207|gb|DN208180.1|DN208180
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|71428383|gb|DR809433.1|DR809433
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|32943300|gb|CF048119.1|CF048119
EST:     TAGAAGAGATGAAAGCATTTTTTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60341576|gb|DN208549.1|DN208549
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60340429|gb|DN207402.1|DN207402
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|211538374|gb|FL468164.1|FL468164
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|67018565|gb|CO447314.1|CO447314
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|60346097|gb|DN213070.1|DN213070
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
EST: gi|78085044|gb|DV513437.1|DV513437
EST:     TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATG                         GCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA
genomic: TAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAA

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: 318

ATTTGCTGATGCTGGAGCAGATGTTCTATTTATTGATGCCCTTGCTTCAGTAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 421

ATTTGCTGATGCTGGAGCAGATGTTCTATTTATTGATGCCCTTGCTTCAGTAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 472

ATTTGCTGATGCTGGAGCAGATGTTCTATTTATTGATGCCCTTGCTTCAGTAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 350

ATTTGCTGATGCTGGAGCAGATGTTCTATTTATTGATGCCCTTGCTTCAGTAGAAGAGATGAAAGCATTTTGTGCGGTTGCACCAGAAGTTCCAAAGATGgttagttgta ... ctctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttcccttctctatcagtgacatgacacatgggtacatttacactctgttcagGCAAACATGTTAGAAGGTGGTGGTAAAACTCCCATATTGAGCCCTGCTGAACTTGAGGAAATTGGTTTCAGGCTTGTAGTATATCCTTTATCCTTAGTTG
                                             ctctgttc  CT-rich tract
                                   tacattta  TA-rich tract