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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTATGGAACGCTCAGCCGGCAGGAAAGGACCATCCTTGGCGTTACATGCCGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaagctccccaccattaggattacagtatcagtcttaatttcctgcattgcaagcattatcagaggcttcatatctataattccagaaaaatcctactcataaattcctcctcctcttgcag

Basic information

species Physcomitrella patens
transcript PP1S106_16V6.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S106_16V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GRMZM2G170602_T01 (Zea mays), 5'ss of exon 5
TGTATGGAACGCTCAGCCGGCAGGAAAGGACCATCCTTGGCGTTACATGCCGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaagctccccaccattaggattacagtatcagtcttaatttcctgcattgcaagcattatcagaggcttcatatctataattccagaaaaatcctactcataaattcctcctcctcttgcag
||| ||| || ||||||| ||    |||||||| || ||||| |||||||| ||| ||||||||||||| || ||||||||||| ||| | || | |||||| |    |         ||| |||      |||||| ||||| |     | | |||| |  | |   || |    |   |||| |  | |||   |     |   |  ||  |      |  |||||
TGTGTGGCACCCTCAGCCTGCGCCCAAGGACCACCCGTGGCGCTACATGCCCAACAACGCCATGACCCCTCACATCTCCGGCACCACCATTGATGGCCAGgtcagtgga---------catcagg------gtatcattcttagtagttagtagtgcagggctga--ggacg----acgactatgacgc-agatgtactaagcatgtttatggcatgggttggtgcag

upper sequence: PP1S106_16V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GLYMA13G23790.3 (Glycine max), 5'ss of exon 6
TGTATGGAACGCTCAGCCGGCAGGAAAGGACCATCCTTGGCGTTACATGCCGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaagctccccaccattaggattacagtatcagtcttaatttcctgcattgcaagcattatcagaggcttcatatctataattccagaaaaatcctactcataaattcctcctcctcttgcag
||| |||  | | ||||| ||   |||||| ||||| |||||||||||||| ||||| |||||||| || ||||| || ||||| ||| | || || |||||  |  ||  | |       ||| | ||   |  |  | || |  |     ||| ||    ||    ||    | | ||  | |||   | |  || | |  |||                      
TGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCACCATAGATGCACAGgtattttaaatttcta-----tagcactagcttgcccttttttacctaagttatttcac---ttggtggaacactaacattaagaat---aaaccaaacttgttcag---------------------

upper sequence: PP1S106_16V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GLYMA19G01200.1 (Glycine max), 5'ss of exon 5
TGTATGGAACGCTCAGCCGGCAGGAAAGGACCATCCTTGGCGTTACATGCCGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaagctccccaccattaggattacagtatcagtcttaatttcctgcattgcaagcattatcagaggcttcatatctataattccagaaaaatcctactcataaattcctcctcctcttgcag
||| |||  |   || || ||   |||||||||||| ||||| |||||||| ||||| |||||||| || ||||| || ||||| ||| | || || |||||  |   |        | || |  ||||    || || ||||  ||  ||  |   |||   | ||     ||| ||      ||  | |   || |  |    |  ||  | | ||  | || |||
TGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCACCATTGATGCACAGgtattttcattaagtttctat-atcattatt-cattag-cttagctttttgtgtc-taagttctttctttcacttgatgg----aacactaattaattaattaatactaaaccatacttgtttttcag

upper sequence: PP1S106_16V6.2 (Physcomitrella patens), 5'ss of exon 8
lower sequence: Vv14s0066g01320.t01 (Vitis vinifera), 5'ss of exon 5
TGTATGGAACGCTCAGCCGGCAGGAAAGGACCATCCTTGGCGTTACATGCCGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaagctccccaccattaggattacagtatcagtcttaatttcctgcattgcaagcattatcagaggcttcatatctataattccagaaaaatcctactcataaattcctcctcctcttgcag
||| ||| |  | ||||| ||    ||||||||||| ||||| |||||||| ||||| || |||||||| ||||| || ||||| ||| | || || |||||    ||   |  | ||  ||    ||    |  |  ||     ||  ||| || |      |   | |  | | | ||    |||    | | |||  |   ||                      
TGTTTGGTATCCACAGCCAGCCCCCAAGGACCATCCATGGCGGTACATGCCAAACCAAGCTATGACCCCTCATATTTCTGGCACCACCATTGATGCACAGgtacccaag--tttctacttttc---ttctccttcccttcccgtatttttgcttttctcatgcttgta-actcataaaatggccaat---gggacaatattgtgcag---------------------

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|208385885|gb|DC956723.1|DC956723
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|162269932|gb|FC445423.1|FC445423
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|18335876|gb|BJ167897.1|BJ167897
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|18341708|gb|BJ173743.1|BJ173743
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|208345467|gb|DC917350.1|DC917350
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|208386186|gb|DC949097.1|DC949097
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
EST: gi|67697753|gb|BJ957986.1|BJ957986
EST:     CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAG                         AAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC
genomic: CGAACCACGCCATGACCCCCCATATCTCCGGCACGACCCTCGACGCCCAGgtgatgaaag ... cctcttgcagAAACGGTTCGCAGCCGGGACGAAGGACATGATCGACCGCTGGTTGAAGCAC