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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG

Basic information

species Physcomitrella patens
transcript PP1S47_46V6.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os06g40560.1 (Oryza sativa), 3'ss of exon 7
gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                               |  ||| |  ||  |  | |  |    ||    ||  ||||| |  || ||  |    |||  |  |||| | | |  |    ||| | |   |  |  || |||||||| ||||| ||||| |||||||| ||||||||| | || |||||  | || || ||||| || |||||  | || ||||||||||||||||| ||||
-----------------------------gatggttgtcactgattcctttaatatgatgtggaaaactgtatgt--gactcctggtattgcatg--gattgtgtgtaacagaattttcct---acttttatacagGTAAAAATGATCATGGCGACTAATCGTCCTGATGTTTTGGACCCTGCACTCCTTCGTCCTGGGCGGTTGGACAGGAAGATTGAAATTCCACTGCCAAATG

upper sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 7
gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttg--tttacatgga-atatggat----gcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                                      |      ||| | |   || | | |  | |  |  ||| |||   | |||||  |    | |||| |||    ||   || ||| ||| || | ||      |||||||||||||| |||||||| ||||| ||||||||||| || |||||  | || || ||||| ||||| ||  | || ||||||||||| || || || |
--------------------------------------cacaatatttaccgtgcattttctatgattgttgcata-gaacagcttgtgtctt----gtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG

upper sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GRMZM2G165817_T01 (Zea mays), 3'ss of exon 7
gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                     | | || ||||        |    |||| |   | |    | ||  | |||  | ||  ||  ||   | ||  |  | |     |   |  |  ||  | |  | || |  |||||||| ||||| |||||||| ||||| ||||||||||| || || ||  | || || ||||| ||||| ||| | || ||||||||||| || || || |
------------------gtaaatttgttatttggattactcacattttttctaggtaca-acgatatagtagct-tgtgtcttgttgtttctgtctaaattcagtttgacaaggatattttggct-tgaa--cagGTAAAAATGATCATGGCCACAAATCGACCTGATGTTCTGGACCCGGCGCTCCTGCGTCCTGGACGTTTAGATAGGAAGATTGAAATTCCGCTACCCAACG

upper sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA06G03230.1 (Glycine max), 3'ss of exon 7
gtactcttgactcttgaaaccattctggtattcat-tggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                           |||||| | ||| | ||    || |     ||| |||    |||      ||||  |    | |  | |  |||||   ||  | ||  |  | |  | |   | || |||| || ||||||||||| || || || |||||||| ||||| |||||| | || || |||||  | |||||| ||||||| ||||| || ||||||||||
---------------------------gtattcttatggatatgttgattttt----tctacaaatgattgc-----tgaacaaaaaatttaatggtggattcacgatgacattactgtc-tacatttctgttgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG

upper sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 7
gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                           ||||||      | ||| | || || |  | |  |  ||    |   |    | ||    | |  | |  ||||| | ||  |  |  |  | |  | |   | || |||| || ||||||||||| || || || |||||||| ||||| |||||| | || || |||||  | |||||| ||||||| ||||| || ||||||||||
--------------------------tgtattc-----ttatggatattttgattttttctacaaa----tgactgctgaacaaaaatttaatggtggattcatgatgacactactgtc-tccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG

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|162266638|gb|FC441998.1|FC441998
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|162266639|gb|FC441999.1|FC441999
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|37837457|gb|BJ595465.1|BJ595465
EST:     CACTCATGGAGTTATNGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|37836411|gb|BJ594419.1|BJ594419
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|162269526|gb|FC445082.1|FC445082
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|37834916|gb|BJ592928.1|BJ592928
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTTAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|208353233|gb|DC926158.1|DC926158
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|37823384|gb|BJ581450.1|BJ581450
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
EST: gi|37833453|gb|BJ591465.1|BJ591465
EST:     CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAG                         GTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG
genomic: CACTCATGGAGTTATTGAATCAACTTGATGGTTTTGATCAGCTTGGAAAGgtactcttga ... atggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
                 attctttat  TA-rich tract