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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT

Basic information

species Glycine max
transcript GLYMA10G29250.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G032505_T02 (Zea mays), 3'ss of exon 3
gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
               || | |    ||   |  ||       | | |  |   | |||  ||     || |||   |        | |||| ||   | |  |  ||| ||||||| || || || |||||||||||||| || |||||||||||| |||| ||||||||||||||||| || || || ||||| ||| | ||  | ||||| |
--------------aatctaaagcaatgaaaaactgccttttatgcatggtcttgagtttaagtaatcaaattaactgctgtaaaatcttagtttcttgtcttgatgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT

upper sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
           ||   || || |     |  ||   |  |      | | ||     | |  |      |   | | | | |     |||   | |   || | | |||||||||| ||||||||||| |||||||| || || || ||||| |  || |||||||||||  ||||||| |||||||| ||||| ||||| || ||||||||||
---------gtgagacttccaaacccattctttagatatgttttctacatcttctcttccgtttcccgtttcatgtctgagcaaatacttttgttttcgttatgtggactgcagACCATCTTTCTACCAGTTGTTGGACTCGTGGATCCTGATAGTTTGAAACCTGGTGACTTGGTTGGAGTTAACAAAGATAGCTACTTGATTTTGGATACCT

upper sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 3'ss of exon 3
gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
            ||| |  ||| |    || || | | |  ||  || |   || | |   ||    || |      |||     |  ||| ||||  ||  | ||||||| ||||||||||||| |||||||||||||| ||||||||||| |||||||| ||||||||| ||||||| || ||||| ||||| ||||||||||| ||||| |
--------attaatgctcacatgtgtgtttcttttgtaattga--aacattacttattcttattcatcaaaaaaaaataa----aacattacttattcttgttcttgactgtagACAATCTTTCTGCCTGTTGTTGGGCTCGTTGACCCTGATAAGTTAAAGCCTGGTGATTTGGTTGGGGTGAACAAAGATAGCTACTTAATCTTAGATACTT

upper sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37626 (Selaginella moellendorffii), 3'ss of exon 3
gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatt-tctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
                                       |  ||   |  |  |||| |    |||  |   | |||||  || |||    |    ||||  | |     || ||||||| ||||| || || |||||  | || || ||   ||   ||||||| ||||| || || ||||| |||||||| || |||||||||||||||||  
---------------------------------------gtaagtttattcattcaggagtgaagtggaagctctcttttttcctgatgccac---tgttcgcctcg---tgtagACAATTTTTCTCCCAGTGGTTGGTTTGGTGGATCCGACCACTCTAAAACCGGGTGACCTTGTGGGTGTGAACAAGGACAGCTACTTAATCTTGGATACAC

upper sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ15061 (Selaginella moellendorffii), 3'ss of exon 3
gtgacatggacgatgatttcatattatcttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
                                       |  ||   |  |  |||| |    |||  |   ||  ||  | ||   | | ||     | |  ||    || ||||||| ||||| || || |||||  | || || ||   ||   ||||||| ||||| || || ||||| |||||||| || |||||||||||||||||  
---------------------------------------gtaagtttattcattcaggagtgaagtggaagctttctt--tttt---cctgatgccactgttcttctcgtgtagACAATTTTTCTCCCGGTGGTTGGTTTGGTGGATCCGACCACTCTAAAACCGGGTGACCTTGTGGGTGTGAACAAGGACAGCTACTTAATCTTGGATACAC

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|6482551|gb|AW201806.1|AW201806
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|6915777|gb|AW397307.1|AW397307
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|298171738|gb|HO021330.1|HO021330
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGAC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGAC
EST: gi|298167852|gb|HO013115.1|HO013115
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|254339477|gb|GR848235.1|GR848235
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTGGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|4313874|gb|AI460993.1|AI460993
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|33390542|gb|CA853737.1|CA853737
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACC
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACC
EST: gi|298195561|gb|HO043952.1|HO043952
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGA
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGA
EST: gi|209719376|gb|BW674456.1|BW674456
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|120530681|gb|EH258814.1|EH258814
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|7924448|gb|AW830474.1|AW830474
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|27427306|gb|CA938826.1|CA938826
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|18040691|gb|BM308985.1|BM308985
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|213598762|gb|DB968233.1|DB968233
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
EST: gi|7042249|gb|AW472143.1|AW472143
EST:     ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAG                         ACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT
genomic: ACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatgga ... ttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatagtacatatttctttaatcttgagcttaattatgttttcttttgactgcagACAATCTTTCTACCTGTTGTTGGGCTTGTTGACCCTGACAAGTTAAAACCTGGTGATCTGGTTGGTGTTAACAAGGATAGTTACTTAATCTTGGATACCT
                                           ttttgac  putative branch site (score: 3)
                                 ttatgttttctttt  CT-rich tract
                             ttaattatgttttctt  TA-rich tract