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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcctcttgtaattatatatattcccgtttttttttgttgttgatatgtctcgccatctgtgtagtgcaactcttgatagactttcttaaactttgtttatccactgtacagctcttgtttaaagtattgatttctttttaatctatatttgtttacttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGCCTGAAAACCTTACATGGTACACTAAACTCAAAG

Basic information

species Glycine max
transcript GLYMA02G01920.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 5
gtaagcctcttgtaattatatatattcccgtttttttttgttgttgatatgtctcgccatc-tgtgtagtgcaactcttgatagactttcttaaactttgtttatccactgtacagctcttgtttaaagtattgatttctttttaat-ctatatttgtttacttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGCCTGAAAACCTTACATGGTACACTAAACTCAAAG
                                  |     || |  | | |  | |||||  | | ||    |||| |  |   |  |   |  ||    || ||    || |  | |  | |||    || || ||| | || ||| |||| ||||||    | | ||||||| |||||||||||||||||||  |||||||| |||||| |||| || ||  ||||    ||| |   | ||||| | || |||
---------------------------------gtaagccttttgaacaagaatagccatgatttttaagataactatctacttaaatggcttgacccatttcatt-gttgaaatgatgattttt----tactggtttttattgaattctatgtttgttg---tttgtccagGTTATGCACATTGCAGCCGCAACAGAAATAAATTCAAGATTAATACCAAGTTTGAAGCATTTAGAAACTGCACTACATTCGAAG
















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|16279870|gb|BI943659.1|BI943659
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
EST: gi|151409155|gb|EV278963.1|EV278963
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
EST: gi|192310921|gb|FG998897.1|FG998897
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACAT
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACAT
EST: gi|298178427|gb|HO024162.1|HO024162
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAA
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAA
EST: gi|192322683|gb|FK015020.1|FK015020
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
EST: gi|192310776|gb|FK000290.1|FK000290
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
EST: gi|209714881|gb|BW682046.1|BW682046
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAG
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAG
EST: gi|209717303|gb|BW659018.1|BW659018
EST:     CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACT                         GTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC
genomic: CAAATGACCATGTCAATAGATCACAGTCTTCAAATGATACATTCCCAACTgtaagcctct ... ttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttgtttaaagtattgatttctttttaatctatatttgtttacttctttccagGTAATGCACATTGCAGCCGCAATGGAAATAAACTCAAGACTAATTCCCAGCCTGAAAACCTTACATGGTACACTAAACTCAAAG
                        ttttaat  putative branch site (score: 3)
                                    tttgtttacttctttc  putative PPT
      tttaaagtattgattt  TA-rich tract