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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGCCTTGTCGTCAAAGGGCCTCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatcttctccctgtgtgattgcacatcttcaatgaattttagctccatgcttgctgtcatcgtgtgaaatgtggaataaccatctgctcacatgttgtatttggttacttcacaagtgtttctaagaaagttctaaaatctggaatttttaattgttggcaagtag

Basic information

species Physcomitrella patens
transcript PP1S174_60V6.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S174_60V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os05g25850.1 (Oryza sativa), 5'ss of exon 5
GATGCCTTGTCGTCAAAGGG------CCTCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatcttctccctgtgtgattgcacatcttcaatgaattttagctccatgcttgctgtcatcgtgtgaaatgtggaataac-catctgctcacatgttgtatttggttacttcacaagtgtttctaagaaagttctaaaatctggaatttttaattgttggcaagtag
||  |  ||    | |||||      | | ||||| ||  | ||||||||||||||||| ||||| |||||| |||||||||         |   ||   |||      |   | | |   |   |   |  ||||| | ||  ||     ||| |  ||      ||  |  ||||||||| || | |                                                            
GACCCTCTGGTAACGAAGGGGGCCAACTTGGTTCCTTTGTTGGGAATTGATGTCTGGGAGCATGCGTACTACCTGCAGgtaa--------tctcatgctgttgtgggggtcagaggcacactcattgtttagttgctcttattctgc----tgttggttattattcctaatggcatgttgtaatttgctt-----------------------------------------------------------

upper sequence: PP1S174_60V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G059991_T01 (Zea mays), 5'ss of exon 5
GATGCCTTGTCGTCAAAGGG------CCTCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatcttctccctgtgtgattgcacatcttcaatgaattttagctccatgcttgctgtcatcgtgtgaaatgtggaataaccatctgctcacatgttgtatttggttacttcacaagtgtttctaagaaagttctaaaatctggaatttttaattgttggcaagtag
||| |  ||  | | || ||      | | |||||  |  | || |||||||||||||||||||| |||||| ||||||| |          || |||||| ||   || | ||   ||  |  || ||  || | ||      ||     | |||||   |    |   || |  ||||  |||| | |||  || ||                                                 
GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtga---------tctttgtgat-gc---tcctaaactgatgatgacttcacact-gttgct----tgactcgtatggaaaggctgcat---caaaaattgttattggctcctt-gcatgtt------------------------------------------------

upper sequence: PP1S174_60V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G124455_T02 (Zea mays), 5'ss of exon 5
GATGCCTTGTCGTCAAAGGG------CCTCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatcttctccctgtgtgattgcacatcttcaatgaattttagctccatgcttgctgtcatcgtgtgaaatgtggaataaccatctgctcacatgttgtatttggttacttcacaagtgtttctaagaaagttctaaaatctggaatttttaattgttggcaagtag
||| |  ||  | | || ||      | | |||||  |  | || |||||||||||||| ||||| |||||| |||||||||  ||||        ||  || |   || | ||   ||  |   | ||  || | ||   ||  || |  | |||||  ||||      || |  ||||  |||| | |||  ||  |                                                 
GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAGCATGCGTACTACCTGCAGgtaa--tctt--------gttgttac---tcctaaactgatgatgaattcacact-gttgc--tcaagtca--tatggaaagaccacac---caaaaattgttattggctcctt-gcatcta------------------------------------------------

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|162260962|gb|FC438019.1|FC438019
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|208366209|gb|DC955308.1|DC955308
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTATAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|162235362|gb|FC412329.1|FC412329
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAANGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|208391751|gb|DC942313.1|DC942313
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAA
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAA
EST: gi|208397933|gb|DC916688.1|DC916688
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|208348700|gb|DC926375.1|DC926375
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|19789071|gb|BQ041074.1|BQ041074
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|37834392|gb|BJ592404.1|BJ592404
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|67570006|gb|BJ942830.1|BJ942830
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|37831305|gb|BJ589317.1|BJ589317
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|67693275|gb|BJ953508.1|BJ953508
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC
EST: gi|162235361|gb|FC412328.1|FC412328
EST:     TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG                         TACAAGAACGTGAGGCCCGACTATTTGAAGAACATCTGGAAGGTTGTAAAC
genomic: TCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAGgtaaaatctt ... tggcaagtagTACAAGAACGTGAGGCCCGACTATCTGAAGAACATCTGGAAGGTTGTAAAC