Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagttggctttcttcccccaaaaaacatctacatggctacattatccatgtgccatatgccttttgaaaatcaattaatcgttactgatttttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG

Basic information

species Zea mays
transcript GRMZM2G164475_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164475_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g73020.1 (Oryza sativa), 3'ss of exon 2
gagttggctttcttcccccaaaaaacatctacat-ggctacattatccatgtgccatatgccttttgaaaatcaattaatcgttactgatttttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG
 |  |||     ||  |        |||||   | | ||| |  |||||||   |  || || |    |||| ||| |    ||     ||| ||||||||||||||||||||||||||||||||| |||||||||||||||||| || |||| ||||||||||||||||||||||||||||||||||| || ||||||||
-atatggaagcatttgcttcctttgcatctcttttgactataccatccatgccacgcattccctaatgaaattaataataaattctacctttgtcctgtagATGCAAACAAAACTGGAGCTGCCCAGGAAGCTATAAATGGTATTCGAAGGGCCAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATACTAGGTATCAG
















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|71440766|gb|DR821816.1|DR821816
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095763|gb|FL084737.1|FL084737
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211213535|gb|FL454948.1|FL454948
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|32917288|gb|CF022100.1|CF022100
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211090829|gb|FL084713.1|FL084713
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093285|gb|FL084721.1|FL084721
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093288|gb|FL084724.1|FL084724
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAG-CCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|22133685|gb|BQ833849.1|BQ833849
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|18178699|gb|BM379909.1|BM379909
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093294|gb|FL084730.1|FL084730
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|87155946|gb|DY400735.1|DY400735
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|71769951|gb|DR967888.1|DR967888
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|17932043|gb|BM269003.1|BM269003
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|26558360|gb|CA830595.1|CA830595
EST:     AACCGTGGGTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|37377317|gb|CF625253.1|CF625253
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093287|gb|FL084723.1|FL084723
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|6653866|gb|AW267271.1|AW267271
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095764|gb|FL084738.1|FL084738
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093283|gb|FL084719.1|FL084719
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095761|gb|FL084735.1|FL084735
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAG-CCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093284|gb|FL084720.1|FL084720
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAA-CAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGG
EST: gi|211093293|gb|FL084729.1|FL084729
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095768|gb|FL084742.1|FL084742
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAG-CCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|37397242|gb|CF635916.1|CF635916
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|78027232|gb|DV495619.1|DV495619
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|32866372|gb|CF006054.1|CF006054
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|91048335|gb|EB158753.1|EB158753
EST:     GGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: GGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095765|gb|FL084739.1|FL084739
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095770|gb|FL084744.1|FL084744
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093291|gb|FL084727.1|FL084727
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093290|gb|FL084726.1|FL084726
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|18162227|gb|BM332066.1|BM332066
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095769|gb|FL084743.1|FL084743
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095766|gb|FL084740.1|FL084740
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211090830|gb|FL084714.1|FL084714
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093281|gb|FL084717.1|FL084717
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095762|gb|FL084736.1|FL084736
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211095760|gb|FL084734.1|FL084734
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|211093286|gb|FL084722.1|FL084722
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
EST: gi|16379894|gb|BI993207.1|BI993207
EST:     AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCA                         ATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG
genomic: AACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGG

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: 46 (upstream exon), 48 (downstream exon)
Score: 83

GCGGGCAGGCTTCTCGCGAATCTAATCGTCATGGGCGGAACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 137

GCGGGCAGGCTTCTCGCGAATCTAATCGTCATGGGCGGAACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 129

GCGGGCAGGCTTCTCGCGAATCTAATCGTCATGGGCGGAACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 94

GCGGGCAGGCTTCTCGCGAATCTAATCGTCATGGGCGGAACCGTGGTTGGCAGGGCCATGCTCCAGGCCTACCGCCAGGCCATCGTCAgtgagtgctc ... tttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgtgccatatgccttttgaaaatcaattaatcgttactgatttttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG
                                     tactgat  putative branch site (score: 94)
                                           tttttcctgt  CT-rich tract
                ttttgaaaatcaatta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagttggctttcttcccccaaaaaacatctacatggctacattatccatgtgccatatgccttttgaaaatcaattaatcgttactgatttttcctgtagATGCAAACAAAACTGGAGCTGCCCAAGAAGCTATAAATGGTATTAGACGGGCTAGCAAGGCCATGACTGAGCAAGAAGCCCGGCAAATTCTTGGTATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - caaaaaa
- - - - - - - - - - - - - - ctacatg
- - - - - - - - - - - - - - - - - -gctacat
- - - - - - - - - - - - - - - - - - - - - -atccatg
- - - - - - - - - - - - - - - - - - - - - - - - - tgccata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgatt