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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttaatctggcttgttgtagctttaatggttgtattgaagacttgtattttttgtcaaaatagtataagaaagctgacattctgtcctccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGATTATGTAGTTAAATATGAAAGTG

Basic information

species Glycine max
transcript GLYMA12G37130.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G087692_T01 (Zea mays), 3'ss of exon 5
tagttaatctggcttgttgtagctttaatggttgtattgaagacttgtattttt-tgtcaaaata-gtataagaaagctgacattctgtcctccattttc--agGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGATTATGTAGTTAAATATGAAAGTG
   |||    ||   | | ||  | |     |  |||        | | ||||  ||| |  ||   | |     |  ||    | |||  | || |||   |||| || || || || || |||||||| |||||||| || ||||||||||| |||||||||||| | |||   |||| |||  | | ||
---ttacaacggtcagat-taaatcttgcattcatataactactctatgttttcctgttatgatccatttgttttaattgtggctttgtattgcacttttcaagGTCCGTGACGCAGGAAACCTTTTGACAAGGGCAGGCTTTACCCTTCCAGGAGTTGATGTTGATCAGTATACCGTTAGATACAATAATG

upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G22800.1 (Arabidopsis thaliana), 3'ss of exon 7
tagttaatctggcttgttgtagctttaatggttgtattgaagacttgtattttttgtcaaaatagtataagaaagctgacattctgtcctccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGATTATGTAGTTAAATATGAAAGTG
                  ||   | | |   |  ||   ||||      |  ||| |   | |    | | | | |     |||| |  ||  |||||||||| | || || |||||||| ||||| ||||| ||||| |  ||||| ||||||||||||||||| ||||||||||||||  | || |
------------------gtgtgtgtgaatatcttagc-aagatcaagttgatttctagtactgaggtgaaagaacatggcttctcttttct-ttttcagGTTAGGGACGCAGGGAATCTGTTGACCAGGGCGGGTTTTAGTCTTCCTGGTGTTGATGTTGATGAATATGTAGTTAAATACAAGAGAG

upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 7
tagttaatctggcttgttgtagctttaatggttgtattgaagacttgtattttttgtcaaaatagtataagaaagctgaca-----ttctgtcctccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGATTATGTAGTTAAATATGAAAGTG
|  |   | | |     |||||  | ||   ||| ||||     || | |||  |  || | |    |      |||||||     || ||   |   | || ||||||| ||||| || |||||||||||| | ||||| || || |||||  |||||||||||||||| ||    |||||||||  |||||
ttatctttgttgacaaatgtag--tgaagacttggattggg---ttatgtttaataccatattttgttggtggtgctgacaattttttatggttttgttatttagGTTCGGGATGCGGGCAATCTTTTGACTCGTGCAGGCTTTACGCTTCCTAGTGTTGATGTTGATGAATACACTGTTAAATATAGAAGTG

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|213593987|gb|DB981371.1|DB981371
EST:     GAGTATCACCTTTGGCACAG                         G-AAGTAGATGCTGGGAATCTTTTGACTAGGGCACAATTCACCCTTCCAGG
genomic: GAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCG-AGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGG
EST: gi|193409851|gb|FK372063.1|FK372063
EST:     AATGGAGCGTGAAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTT
genomic: AATGGAGCGTGAA-GGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTT
EST: gi|6846254|gb|AW348544.1|AW348544
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|14012032|gb|BG726963.1|BG726963
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCNAGATGCTG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTG
EST: gi|254345258|gb|GR855808.1|GR855808
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|192297062|gb|FG990333.1|FG990333
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|15200173|gb|BI424211.1|BI424211
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|6071750|gb|AW101137.1|AW101137
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|51335049|gb|CO978915.1|CO978915
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGG
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
EST: gi|192299412|gb|FG992530.1|FG992530
EST:     AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAG                         GTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT
genomic: AAATGGAGCGTGAAGGAGGGATCAGTCCCCGAGTATCACCTTTGGCACAGgcatgttatt ... ccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtattttttgtcaaaatagtataagaaagctgacattctgtcctccattttcagGTTCGAGATGCTGGGAATCTTTTGACTAGGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGATTATGTAGTTAAATATGAAAGTG
                            agctgac  putative branch site (score: 3)
                                    ttctgtcctccatttt  CT-rich tract
             aaaatagtataagaaa  TA-rich tract