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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactataccatgatagtataatgtaaattcagttcgatgttttctggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG

Basic information

species Selaginella moellendorffii
transcript EFJ22778
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ22778 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G094951_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------gtactataccatgatagtataatgtaaattcagttcg-atgttttctggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG
                                               || |  ||  |  | || ||  | | || |  | || ||      | |||||||| ||  ||||||||||||||||||| ||| ||||||| |||||  | || || ||| |  |  |  | |  || || ||   ||| |||||    |
gtagctgtttatggacattttcacgggattatcttgtattttttcgataaaatatactgctgtactgagagtccaatatgcatcttgatccttatagGACTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAATCCATCAG

upper sequence: EFJ22778 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G051050_T01 (Zea mays), 3'ss of exon 4
----------------------------------------------------------gtactataccatgatagtataatgtaaattcagttcgatgttttctggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG
                                                           | || | |   || ||| ||||  | | ||   |   |   |||     ||||| || ||  ||||||||||||||||||| ||| ||||||| |||||  | || || ||| |  |  |  | |  || || ||   ||| || ||    |
gtagctgtttatgtacattttcacggggaagcaccttgtattttttggataaaatatactgctgtgctg-gaaagtctaat--agactccaatatgtaccttccctcatagGATTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAACCCATCAG

upper sequence: EFJ22778 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------------------------------gtactataccatgatagtataatgtaaattcagttcgatgttttct---ggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG
                                                   ||    ||   |||   |     | |   | |   || || ||  |    ||  |||||||||| || || |||||||||||||| ||||||||||| |||||| | || ||  | ||  |  |  | ||||| || ||  | |||||||||  ||
gtagtactcaaaatttattcagccttgaccctctctatgtagtgatgcagcgtggcttatgctgaagttgatcaggattcttatgccgttgcttgtttaaagtacagGACTTACCTCGGACATTTCCTGGTCATCCTGCTCTAGATGATGATGGTAGAAATGCTCTACGGCGTTTGCTTACTGCTTATGCTAGGCATAATCCTTCTG

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 1 RNA-Seqlibrary.


Block sizes: 25 (upstream exon), 11 (downstream exon)
Score: 1

GCCATCAAGCAATGGAAATGGGAATGCTAATGGTTATACACACCATGACGAACCTCCCTCTGTTCCAGCACAAGAAAAATATGTGAACCAAATTGAAAAGgtactatacc ... tctggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactataccatgatagtataatgtaaattcagttcgatgttttctggtgtagGACTTACCGCGAACTTTTCCTGGTCATCCAGCTCTAGATGAAGATGGTCGGAACGCATTGCGCAGGCTTTTGACTGCATACGCACGACATAATCCTGATG
                                         tgttttct  CT-rich tract
               atagtataatgtaaat  TA-rich tract