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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggcctcgaactgttattaaatgttattaagttgtttggggtatacatttaccatatctttttgtgattaaactatcctgaatttcttcttgtcataggaggacatttcttgagtttattaactttttaaaattagttaatcagatgatgatcattggagaaagttgatggttcttgatctcttgaaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAG

Basic information

species Glycine max
transcript GLYMA13G44960.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G44960.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g27960.1 (Oryza sativa), 3'ss of exon 8
gtatggcctcgaactgttattaaatgttattaagttgtttggggtatacatttaccatatctttttgtgattaaactatcctgaatttcttcttgtcataggaggacatttcttgagtttattaactttttaaaattagttaatcagatgatgatcattggagaaagttgatggttcttgatctcttgaa--aattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAG
                                           |||   |  ||    |      ||  | ||| ||    ||  |||          ||      | || |  ||   | ||||    | | || |||||  |    | |||    ||| |     |  |     |    | | ||  |  | ||| ||||||| |||||||| ||  |||| |||   |||||  || |||||||||||||||||||||| |||||||| || || |||||||| || ||  | || |
-------------------------------------------gtaagaacataaatgaatagcatgcaactaatctgctgtggttttgcaagctctgtac-----cgttacaagaccatgttaa----tgacaactagttgttgtagtaatg----ttgaaactgttccaaccaacacacttttttacatgatttgcagATCCCATTCTGTGTGGTAATTGGCTGGATAATGGGCCAACAAATGGACTTGAATTTTCAACTGTTCGAGACAGCAACTCTTTTTATAACAGTACTGGTGG

upper sequence: GLYMA13G44960.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G053004_T03 (Zea mays), 3'ss of exon 8
gtatggcctcgaactgttattaaatgttattaagttgtttggggtatacatttaccatatctttttgtgattaaactatcctgaatttcttcttgtcataggaggacatttcttgagtttattaactttttaaaattagttaatcagatgatgatcattggagaaagttgatggttcttgatctcttgaaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAG
                                    ||       |||    | |||||    |   |  |  |||       |       | |    | |    ||| || ||  ||   |   |   | |   ||     |  ||||        ||    | | ||| |      |  | | |    |  |  |||| || ||||| || ||  |||| |||   |||||| ||||||||||||||||||||||||| |||||||| || || || ||||| |||||  |||| |
------------------------------------gtaataataataggaattccataataatacatagtgtaacagatacaacaactaccctactctggttttacaatttttttgtcattagccaaatcatgttttagacagtagataccacctttttccaataattgttctggtattctttttcatgatcttcagATTCCATTCTGCGTGGTAATTGGCTGGATGATGGGACAAGAAATGGACTTGAATTTTCAACTGTTCGAGACAGCGACTCTCTTTATAACTGTACTAGTGG

upper sequence: GLYMA13G44960.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 9
gtatggcctcgaactgttattaaatgttattaagttgtttggggtatacatttaccatatctttttgtgattaaactatcctgaatttcttcttgtcataggaggacatttcttgagtttattaactttttaaaattagttaatcagatgatgatcattggagaaagttgatggttcttgatctcttgaaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAG
                                                                                              ||| | | ||  || ||||    |  ||  |     |    ||  ||  | |  |  |||  ||||    | | | | |  |||||  || ||||  |||| |||| || |||||||| |||||||| |||   |||||| ||  ||||||||||||||||||||| || ||||||||||| || |||||| | ||| ||||||
--------------------------------------------------------------------------------------------gggtccttg-agatcagttctatgataaatatatagcatggtgtt--tttcttat-tagtgaatattgag--aggcttaagaatcttgtgctgttgatgattgcagATTCCCTTCTGTGTGGTTGTTGGTTGGATTATGGGACAACCAATGGACTTGAATTTTCAACTCTTTGAGACTGCCACTCTCTTTATCGCGGTGCTAGTAG

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|192319188|gb|FK010668.1|FK010668
EST:     TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
EST: gi|192315878|gb|FK005709.1|FK005709
EST:     TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
EST: gi|151402628|gb|EV272441.1|EV272441
EST:     TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
EST: gi|192328536|gb|FK020768.1|FK020768
EST:     TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
EST: gi|192319189|gb|FK010669.1|FK010669
EST:     TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCACTATTGGAGTTGCTATTGGATCGTCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
EST: gi|192328537|gb|FK020769.1|FK020769
EST:     TCTACACAGATATCTATGTTTGTG                         ATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG
genomic: TCTACACAGATATCTATGTTTGTGgtatggcctc ... aaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagatgatgatcattggagaaagttgatggttcttgatctcttgaaaattgtagATCCCTTTCTGTGTAGTTGTTGGATGGTGCATGGGAAAAGAAATGGACTTGAATTTTCAACTATTCGAGACTGCCACGCTTTTTATCACTGTGTTAGTAG
                                tcttgat  putative branch site (score: 4)
                                          ttgaaaatt  TA-rich tract