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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC

Basic information

species Glycine max
transcript GLYMA02G07190.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
||||  | |  ||  | |||     |     || |   | |      |    ||| ||| |      | ||     ||||  |||   | |  | ||  |  |||| ||||||||||||||||| || || ||||||| |||||||||||| || |||| ||||||  |  | ||  |   ||| ||||||| | |    ||||
gtaaatactgtttcctgaaactgcaagcatatattcctagtcttgcatggtgtatgtattc------agttaattgtttaccttt---tcctctgcttctgtagACAACATATGAGAACTTCAGGTATCGGTATGATCAACGGGCCAACCCATACAACAGGGGAGTCATGGAGAACATTAAAGATATATTCTTCTCTGCAATTC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaacttta--tatttgtgt---tcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                        ||  || ||||   ||| |   ||||  |    | |  |  |   |     | |||  || |  |||    |  | || || ||||| || |||||||||||||| || || || ||| ||||||| |||||||||||||  || ||  | || || ||  ||||||||||||||| | | ||||
-----------------------gtaggtattagttcgattcagcattaatttcctaaacacaacgatttcaattcattagctaatcatgtagccctgttcttttgcagACAACTTATGAGAACTTCAGGTATCGCTACGATAGACGGGCTAACCCGTATAACAGAGGCGTTCTGAACAACTTTCTAGAGATATTCTGCAGCCGTATTC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G868588_T01 (Zea mays), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
    |    || | | ||  | || ||||| | |     ||||    |||||    |||      | | ||| ||       |||   |  | |||     ||||| || ||||||||||||||||| || |||||||| |||||||||||||| ||||  ||  | || || || ||| | |||||||||||||||    | |
--gttggcaccctgtcaactttttaatataattg---gttttacctgtaagca---tattgctaggaatttgtaatcac---ttttcctatactac----gcagACAACCTATGAGAACTTCAGATATCGCTATGATCGGCGGGCCAACCCGTACAACATAGGGATCTTGAACAACTTCATGGAGATATTCTGCACCGCAGTCC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
---------------------------------------------------gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacagga-cttgcaactttatatttg---tgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC-
                                                    |  | ||   |  |||   |  |  || || |   |  |   || ||    |  || || |   ||| | |    | ||   | ||   | ||| |  |  || ||||| || |||||||||||||||||||| |||||||| |||| ||| ||||| ||||  ||     | || || ||| | |||||||||||||||  || || 
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgta-agcatattgctaggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCT-CAGTCG

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G821611_T01 (Zea mays), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
           |   |  ||  || ||         ||  | |  | |    || |     | ||| |  |  ||   | ||    | || |||     |  |||| ||||||||||| |||||||| || |||||||| || |  ||||| |||||||| || ||  | || |||||  ||||||||||||||||    || |
----------gtaggtccaacattcattccaattcttatctcattgatgccgtaaccgcagttcagtagct--aatcctttacccatttttatt-----tgtagACAACATATGAGAATTTCAGATATCGCTATGATCGGCGCGATAACCCATATAACAAAGGTGTTCTGAACAATTTTCTAGAGATATTCTGCACTGCTATCC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G034833_T01 (Zea mays), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgtt-cattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
||||  |    ||   ||  ||   | |  |  ||||    ||   || |   ||  |   | | |  |      ||    | |||   | | |     ||  |||| ||||||||||||||||| || || ||||||| ||| |||||||| || |||| |||| |  |    ||  ||  | |||| || |  ||||  || |
gtaaaaaactgttcccaac-tcccaagaaggatgtatt-catatccttgactgatgaagtatgctgcgccaattgctaatcagttgccctacctcggccttgtagACAACATATGAGAACTTCAGGTATCGCTATGATCAACGAGCCAACCCATACAACAGGGGAATCATGGTAAACATCAAACAGATCTTATTTACCACGATCC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggacttgcaacttta--tatttg-tgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                       |    || |  | |   |     | ||   | || ||  |   ||  |||   ||||    |||| | ||  ||  |  |  |||||||||||||||| ||||||||| | |||||||| |    ||||||  ||||||| |||||| |  |||| |||  ||| || || |   |    || |
----------------------gtaccctaatcatttgcctctttctgaaaaaacctctctcattcgatatgcgtgtttaatcgtttgatctttctttattctgtagACTACATATGAGAATTTCAGATACAGTTATGATCGGCATAGCAACCCACATAACAAAGGAGTGGTTGATAACTTCAAAGAAATCTTTTTTTCTCCAATAC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatcattcctttttaaaatctttatatagtagtataatttaaagttaagctatctatcctacaggactt--gcaactttatatttgt--gttcattactgtt---acagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                          |||  |   |  ||  ||     | |   || || ||  | |     | | || | ||    |   || ||   ||||    ||||||||||| ||||| ||| ||||| |||||||||| ||   ||||||  |||||||||||||| | ||||| |||  ||| | ||| |   |||  || |
-------------------------gtatgttgcgaccatccaatccccacc---ctctcttaaggaatcacggtatctctgtaaccattgatttatctttgttcttgcagACTACATACGAGAATTTCCGATACAGATATGATCGGCGAAGCAACCCACATAACAAGGGAGTGGTTAATAACTTCAAAGAAACATTTTTTTCCACAATCC

upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
---gtaatcattcctttttaaaatctttatatagtagt-ataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
        |    |||  |||     | ||   ||||    ||||| | || ||  |||    ||||   |      || |||   | | | |||  | || || |||||||| |||||||| ||||||||||||||||||||||| |||||||| || ||||| |||||| |  | || |||   |||||||| |||||||||||| 
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacag---cagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT

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|208105440|gb|GD902827.1|GD902827
EST:     AGTACAAATCAG                         ACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTAT
genomic: AGTACAAATCAGgtaatcattc ... actgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
                        aactttatatttgt  TA-rich tract