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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT

Basic information

species Arabidopsis thaliana
transcript AT3G57330.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g71240.1 (Oryza sativa), 3'ss of exon 5
--------------------------------gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagta-atgattgttttgc-accttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
                                ||    |||||          ||   |       ||  ||| |    |    ||| |  |  |||||   ||||    |  ||||||   |||||| || ||    ||||| ||||| ||||||||| |||||||||||||||| || ||  |||| || ||||| || || || ||||| |   |
gtattaagaatttgaaatttttcgtacaaaaagttgacaaaatttcttctggtcatggtcaggtataagaattctctggttcttgttccgatttatgatgaatttgttggcgattcagGGAGTGCGCCGCTGACGATTGTGCAGCTGCTGTGGGTGAACCTGATCATGGACACACTGGGGGCGCTGGCGCTGGCGACAGAGCCGCCGAACGACGCGAT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G104730_T02 (Zea mays), 3'ss of exon 6
-------------------------------------------------------gtaagtaaaatca--aacacatgcacaattttcaccaatgat-ttttgaataacagt---ttcagtaatg-attgttttgc-accttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
                                                       |   ||  | | |      | ||    || | |  | |||   | | || |||||||   || |||  || | |  | | |  |     ||||    || || ||||| || ||||| ||||| ||||| ||||||||||||||||| || || ||  |||||||||| || || ||||||||||| |   |
gtttggggccatttacctatgacattcctcttgcaatataatggccatgggccatggctgttcagttagtggttcttggtatatctgctgctatgccatctggagtaacagtgctttgagtgctgtactactgtactgctacgacagGGAGCGCTCCTCTCACGGCGGTGCAGCTGCTGTGGGTCAACATGATCATGGACACGCTGGGAGCTCTGGCTCTAGCCACGGAGCCTCCCAACGACGACAT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G476000_T01 (Zea mays), 3'ss of exon 5
--gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
   |       |||| | |   |     |||    |   ||  |     | ||   |  |  |||||         |    ||||||    || || || |||   ||||||||||| ||||||||| ||||||||||||| || || ||  |||| || ||||| || || |||||||| |   |
gtattctcgtcatcagata---gtcttgtttctttctgcgacatacagctgacgaatggacaaatga-------aaatgaattcagGGAGCGCCCCTCTGACCATCGTGCAACTGCTGTGGGTGAACCTGATCATGGACACCCTGGGCGCCCTGGCGCTGGCGACGGAGCCCCCCAACGACGCGAT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G31770.1 (Glycine max), 3'ss of exon 3
-----gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
      |   ||| |  |      | | |  || | | |  |    ||||  | | ||   ||    |||| || || |  |||| |||||||||| ||||||||||| || ||  |||||||||| ||| ||||||||||||| ||||||||||| || || || || |||||||| ||||| ||  |
gtttgttggttaatagaatttgttttcccttttataatctgttgactttgtttca-agcaacatggttgatagtcttccttcttt-cagGATCTGCTCCACTCACCGCTGTTCAGTTGCTTTGGGTCAACTTGATCATGGACACTCTTGGTGCATTAGCCCTGGCTACTGAACCTCCTAACGATGGACT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G29010.1 (Glycine max), 3'ss of exon 6
-----gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
      |   ||| |  |      | | |  || |   |  |    ||||  | | ||   ||    |||| || || |  |||| |||||||||| |||||||| || || ||  |||||||||| ||| ||||||||||||| ||||| ||||| || || || || |||||||| ||||| ||  |
gtttgttggttaatagaatttgttttcccttttattttctgttgaatttgtttca-agcaacatgggtgatagtcttccttcttt-cagGATCTGCTCCACTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATCATGGACACTCTTGGGGCATTAGCCCTGGCTACTGAACCTCCTAACGATGGACT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G15800.1 (Glycine max), 3'ss of exon 5
gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaa-----tgatt--gttttgcacctt---ttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
||  ||  | ||| | | ||      |   |  || || || ||||||  | |||||| | |      ||||  |||||   ||||   |||||||||||| || ||||| || || ||  |||||||||| ||| |||| |||||||| || |||||||||||| | || || ||||||||||| || ||  |
gtttgttgattcataaaaattttgtttccactgcagtg-ttgttgaat--ctgtttcaatgaacagccgattaagttttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTGGGTGCATTGGCTTTGGCCACTGAACCTCCCAATGATGGACT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G01360.1 (Glycine max), 3'ss of exon 6
---gtaagtaaaatcaaacacatgc-acaattttcaccaatgatttttgaataacagtttcagt---aatgattgtttt--gca----ccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
    ||  || |   ||     |   || || ||  |   | ||   | ||||     |||| |    |||| |  |    |||    || ||||||| ||||| || || || || || ||| |||||||||| ||||||||||||||||| || || |||||||| || || || ||||||||  | || ||  |
gtaatacatacagctaactttttaagacgatcttttcaggtcatagctaaatatttagttcaatttagatgactaatcacagcagaatccatttcagGTTCTGCTCCTCTTACTGCTGTTCAAATGCTTTGGGTAAACATGATCATGGACACCCTGGGCGCATTGGCACTGGCTACAGAACCTCCTCATGATGGGCT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G35970.1 (Glycine max), 3'ss of exon 5
---gtaagtaaaatcaaacacatgc-acaattttcaccaatgatttttgaataacagtttcagt---aatgattgtttt--gca-----ccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
    ||  || |   |          || || ||  |     ||   | |||    | |||| |    |||| |  |    |||     || ||||||| || || || || || || || ||| |||||||||| ||||||||||||||||| || || |||||||| || || || ||||||||  | || ||  |
gtaatacatacagctagcttttcaagactatcttttcaggccatagataaatttttggttcaattcagatgactaatcacagcagaaatccatttcagGCTCAGCTCCTCTTACTGCTGTTCAAATGCTTTGGGTAAACATGATCATGGACACCCTGGGAGCATTGGCACTGGCTACAGAACCTCCTCATGATGGGCT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G32780.1 (Glycine max), 3'ss of exon 5
gtaagtaaaatcaaacacatgcacaattttcaccaatgatttttgaataacagtttcagtaa----------tgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
||  ||  | ||| | ||||      |   |  || || || | ||||  | |||||| | |          | ||| | || |   |||||||||||||| || ||||| || || ||  |||||||||| ||| |||| |||||||| || ||||| |||||  | || || ||||||||||| || ||  |
gtttgttgattcataaacattttgtttccactgcagtg-ttgtcgaat--ctgtttcaatgaacaaccgatttcattttcttccttattttcagGATCTGCTCCCCTCACAGCTGTTCAGTTGCTTTGGGTCAACCTGATTATGGACACTCTGGGTGCTTTGGCCTTGGCCACTGAACCTCCCAATGATGGACT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g08960.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------gtaagtaaaatcaaacacatgcacaattttc--accaatgatttttg-aataacagtttcagtaatgattgt-------tttgcacc--ttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
                                       ||      | |   ||   |||| ||| | |  | |||  |     | |||||   |   | |||| ||  |       |||| | |    |||||||||||| ||  | || || || ||  |||||||||| ||| |||| |||||||| || |||||||||||  | ||||| |||||||| ||||| |   |
gtgcgttggcccatggagctagtcttttcatttcatgtagtgctcttatttgtacttttgcataatatgccaatcaacaacagcagcaataatgataataataataatgataaggatctttgaaacaacattcagGATCTGCCCCCTTTACGGCTGTCCAGTTGCTTTGGGTCAACTTGATTATGGACACTCTCGGTGCATTGGCATTGGCGACAGAACCTCCAAACGATGCACT

upper sequence: AT3G57330.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv13s0158g00360.t01 (Vitis vinifera), 3'ss of exon 5
--------gtaagtaaaatcaaacacatgcacaattttca--ccaatgatttttgaataacagt--ttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
         |   | |||||     | |  |||| ||          |  | |  |||||   |   | || |||   | |        |||||||||||||| || || || || || ||  |||| |||||||| |||||||||||||| ||||||||||| ||  | || || ||  |||| |  || ||  |
gtgcgttcatccattaaatctttttcct-tacaacttaagatttggcgtctatataataaagatgacttagaaatttctttccaagtaattttcagGATCTGCTCCTCTTACTGCTGTCCAGTTGCTCTGGGTGAATATGATCATGGACACTCTTGGTGCATTAGCCTTGGCTACAGAGGCTCCAACTGATGGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaccaatgatttttgaataacagtttcagtaatgattgttttgcaccttttcagGATCTGCGCCACTCACCGCAGTGCAACTGCTTTGGGTGAACATGATCATGGACACACTTGGTGCATTGGCTCTAGCGACCGAACCTCCCAACGAAGGTTT
               gaataac  putative branch site (score: 2)
                                       ttttgcaccttttc  putative PPT
     aatgatttttgaataa  TA-rich tract