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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtatttatgtagccgtgtggtgttgtcattgtcattttccag

Basic information

species Physcomitrella patens
transcript PP1S78_3V6.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G357707_T01 (Zea mays), 5'ss of exon 3
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtatttatgtagccgtgtggtgttgtcattgtcattttccag
                               ||||||||  | |||  ||  |||||  | ||  ||||||||||||| ||||||||||| ||||||||||| |              ||||||    ||      ||    ||    |    || |||  |  || ||  ||| | ||          | |  | || |||| ||||     |      |   || | |  |    |      |  | || |  || |||        
-------------------------------TTTAACAATGTGTTGACTGATTTTGATAGAGACATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaag----------taaaagcggttgcc-----accacagtttgggaggattaaacttgttctgcaaggaaacagattgatggttttggacttttggtttttatcttc---cctattaaatttcagcaccttccaaa----attcttttctttttttcag-------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G160478_T01 (Zea mays), 5'ss of exon 1
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtat-ttatgtagccgtgtggtgttgtcattgtcattttccag
                                                                 ||||||||||||| ||||||||||| ||||||||||| |              ||||||    ||      ||    ||    |    || |||  |  || ||  ||| | ||          | |  | || |||| |||| |   |      |   || | |  ||    |    | |  | || |||              
----------------------------------------------------------------ATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaag----------taaaagcggttgcc-----accacagtttgggaggattaaacttgttctgcaaggaaacagattgatggttttggacttttggtttttatcttt---cctattaaatttcagcaccttccaaaattcttttcttttttcag-------------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G466602_T01 (Zea mays), 5'ss of exon 3
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtat-ttatgtagccgtgtggtgttgtcattgtcattttccag
|||  |  |||| |   |     | |  |  ||||||||  | |||  ||  |||||  | ||  ||||||||||||| ||||||||||| ||||||||||| |              ||||||    ||      ||    ||    |    || |||  |  || ||  ||| | ||          | |  | || |||| ||||     |      |   || | |  ||    |    | |  | || |||              
CATATCAAAGCTCTTCAACCTATTCACCCAGTTTAACAATGTGTTGACTGATTTTGATAGAGACATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaag----------taaaagcggttgcc-----accacagtttgggaggattaaacttgttctgcaaggaaacagattgatggttttggacttttggtttttatcttc---cctattaaatttcagcaccttccaaaattcttttcttttttcag-------------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G400882_T01 (Zea mays), 5'ss of exon 3
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtat-ttatgtagccgtgtggtgttgtcattgtcattttccag
|||  |  |||| |   |     | |  |  ||||||||  | |||  ||| |||||  | ||  ||||||||||||| ||||||||||| ||||||||||| |              ||||||    ||      ||    ||    |    || |||  |  || ||  ||| | ||          | |  | || |||| ||||     |      |   || | |  ||    |    | |  | || |||              
CATATCAAAGCTCTTCAACCTATTCACCCAGTTTAACAATGTGTTGACTGGTTTTGATAGAGACATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaag----------taaaagcggttgcc-----accacagtttgggaggattaaacttgttctgcaaggaaacagattgatggttttggacttttggtttttatcttc---cctattaaatttcagcaccttccaaaattcttttcttttttcag-------------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G359070_T01 (Zea mays), 5'ss of exon 6
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatct---ctatgctcccgcagcgtcggtatttatgtagccgtgtggtgttgtcattgtcattttccag
|||  |  |||| |   ||    | |  |  ||||||||  | |||  ||  |||||  | ||  ||||||||||||| ||||||||||| ||||||||||| |            | |||  |         |  ||    ||    |    || |||  |  || ||  ||| ||||          | || | || |||| ||||   ||||   |   || |  |     ||    |    | |  | || |||              
CATATCAAAGCTCTTCAATCTATTCACCCAGTTTAACAATGTGTTGACTGATTTTGATAGAGACATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaa-----------ctaaaaagggttg----acaccacagtttgggaggattaaacttgttctgcaaggaaacaaattgatggttttggatttttggtttttatcttccctattaactttcaacacc-----ttccaaaattcttttcttttttcag-------------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM5G895991_T01 (Zea mays), 5'ss of exon 6
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtatttatgtagccgtgtggtgttgtcattgtcattttccag
|||  |  |||| |   ||    | |  |  || |||||  | |||  ||  |||||  | ||  ||||||||||||| ||||||||||| ||||||||||| |        | |   || |     | |||||      ||  ||       || |||  ||  | ||  ||| ||||          || | | | |||  ||| | |   ||  |      |    |||| | |  | |                           
CATATCAAAGCTCTTCAATCTATTCACCCAGTTCAACAATGTGTTGACTGATTTTGATAGAGACATGTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaa--------actaaaaagggttgacactgcagttttggaggat-------taaacttgtaccgcaaggaaacaaatt---------gattttttatttcccatttattaacttgcaacatctttcaatttttttttcag---------------------------

upper sequence: PP1S78_3V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G391167_T01 (Zea mays), 5'ss of exon 2
CATTGCCGAGCTTTATGATGCTGTGATTCGCTTTAACAACATTTTGCTTGGCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactatttggatttccaaagcgaacccctgcaagccctgattatacaacgatagactactaatgaaattaaagaaatcacataacccgaatgtctgtttttcatctctatgctcccgcagcgtcggtat-ttatgtagccgtgtggtgttgtcattgtcattttccag
|||  |  |||| |   |     | |  |  ||||||||  | |||  ||  |||||  | ||  | ||||||||||| ||||||||||| ||||||||||| |              ||||||    ||      ||    ||    |    || |||  |  || ||  ||| ||||          | |  | || |||| ||||     |      |   || | |  ||    |    | |  | || |||              
CATATCAAAGCTCTTCAACCTATTCACCCAGTTTAACAATGTGTTGACTGATTTTGATAGAGACATCTGGTCCTATATATCATTAGGCTACTTCAAGCAGgtaaag----------taaaagcggttgcc-----accacagtttgggaggattaaacttgttctgcaaggaaacaaattgatggttttggacttttggtttttatcttc---cctattaaatttcagcaccttccaaaattcttttcttttttcag-------------

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|162170404|gb|FC346796.1|FC346796
EST:     GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAG                         AGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
genomic: GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactattt ... cattttccagAGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
EST: gi|162231111|gb|FC406222.1|FC406222
EST:     GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAG                         AGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
genomic: GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactattt ... cattttccagAGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
EST: gi|162167458|gb|FC343668.1|FC343668
EST:     ATTTCAAGCAG                         AGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
genomic: ATTTCAAGCAGgtgactattt ... cattttccagAGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
EST: gi|162195993|gb|FC372684.1|FC372684
EST:     GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAG                         AGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC
genomic: GCTTTGACCGCGATGTGTGGTCCTATATCTCATTAGGCTATTTCAAGCAGgtgactattt ... cattttccagAGAGTAATTGCAGGTGAAGTCGGGTCCTCCACTATGCCCCACAAAGTAAAC