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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtcctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA

Basic information

species Glycine max
transcript GLYMA10G41920.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 17
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtcctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
                   || |  ||| | |        | ||  ||||  ||| |     |   |    |||| ||  |  | |     ||| || |  | || |        ||  | | |  |  |||       || |||   ||   |  | |  || | |   ||   |  | | ||| || |||| || |    ||| || || || || || || || ||  |  | |||||||||||||||||||| ||||||||||| ||| | ||  |||| |
-----------------gtaattcttatgtctgaatgacttaatcattttgagaattaaaaatctggt--ttagtggttacagagtc----cctttggttctgcacttctgctcaaagattagac-acattgagcaatataagttc--atcacttctctgattctggaactgtggtcatccctagGTTCCATTCTCAAGAACTGTCTACATCGAGCAGTCTGATTTTCGTGTAAAGGATTCAAAAGATTATTATGGGCTTGCTCCTGGTAAAACAGTACTACTAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtcctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
                                                                                                          ||   | |  | |||  |  ||  | ||   ||  |      || |  ||  || ||  | |  |    | ||   ||| |  | || || |  |||||||| ||||| || || |||||||| ||| | |||||||||||||||||||| || || ||||| ||||||||  | || |
---------------------------------------------------------------------------------------------------------gtaagctgt--atttcgca-aatacttgttttctactaacaacatattactgtttcttgatattttttcctggt--ctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtc-ctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
                                                                             |  |||| |||  || ||||  || |   ||    ||| ||      ||  || || |||  ||   ||| |  |||  ||    ||||| |    |   |    |||| || ||||||| ||| |||| || ||||| ||  | || || |||||| ||||||| |||||||| ||||| ||||||||||| ||||||||  | ||||
----------------------------------------------------------------------------ttttccaattttgatcactatactgttctgatcctatatcaa------atattgctgttagtgttggatttctgagtgattttgcatttttct----ccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA

upper sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 18
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtcctatgatgattcaatatcttattaacttcata---tgatgttggtaggctt--atgtttgtatgtgtc--ttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
                                                                                          |   |   |     ||  |   |||||||   ||     || ||   || |||  ||||||  |  ||||  | |||||| || |  ||  ||  || |||| |  | ||||||||  ||||||| ||||| || || || || |||||| | ||||||||||| || ||||| ||||||||||| ||||| ||  ||||||
------------------------------------------------------------------------------------------tggcaaagtagaggaacctaccattaactatgtaactccatattca-agacttggatgttttaaactgtcaataatttttcttttgctgttttcatt-ttagGTGCCCTTTTCCAAAATTGTATACATTGAGCAGTCTGATTTTCGGATGAAGGATTCAAAAGACTACTATGGGCTTGCTCCTGGAAAATCCGTCCTACTCA

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|17401220|gb|BM178002.1|BM178002
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|20812918|gb|BQ297396.1|BQ297396
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|58022687|gb|CX709428.1|CX709428
EST:     CAANGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTTCATTTTCCAATGTNGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|19346023|gb|BM890903.1|BM890903
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|16995857|gb|BM085229.1|BM085229
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|298164021|gb|HO013666.1|HO013666
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
EST: gi|17401215|gb|BM177997.1|BM177997
EST:     CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAG                         ATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA
genomic: CAAAGAAATGGCCTGATGCTCAAGCTGATGATGCTTCTGCTTTCTACAAGgtgaaattga ... ttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
                                            tttgttctt  CT-rich tract
                         ttattttttttgtcat  TA-rich tract