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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgattttgttatttacatgatactcttcgagagttctgcaagcagcacgtgccaagcattgtcatggctcatctgaatgtatgatgttattaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCTGGCTTTGCATCTTCATTTGAAACCAGGAATGAAG

Basic information

species Physcomitrella patens
transcript PP1S505_6V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S505_2V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G122810_T02 (Zea mays), 3'ss of exon 4
-------------------------------------------------------atgattttgttatttacatgatactc-ttcgagagttctgcaagcagcacgtgccaa-gcattgtcatggctcatctgaatgtatg-atgttattaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCTGGCTTTGCATCTTCATTTGAAACCAGGAATGAAG
                                                       |    |||  |   ||    | |     | |||||||     |     |  | |     | |  | |||||   |   |||  | | ||| |  |      ||||||   || ||| |  | ||||||||||| || ||||| ||||||||||| ||  |||| |||  |||||||||||||||||||
gtgaggactcccttccataaagagtaatcttggtcttcatttgtcagaacaaatgaaatgtttagtgcctattccaaataaactagagagttaacataatgttatatacttctacttatttatggcctttggtaattgacgtatgcttattgtgttagATGGAATGGAGAATCCTTACGTGAAAGCATCAAGCGACATGAGCATTTTCTTGCCCTGCAACTTGGTTTGAAACCAGGAATGAAG
















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|208348255|gb|DC905497.1|DC905497
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208350053|gb|DC910288.1|DC910288
EST:     AACAGCTTCTACGANTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208372097|gb|DC940279.1|DC940279
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100352660|gb|BY945383.1|BY945383
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100419397|gb|BY957563.1|BY957563
EST:     AACAGCTTCTACCAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208353412|gb|DC938689.1|DC938689
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100401171|gb|BY990866.1|BY990866
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100422729|gb|BY957971.1|BY957971
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|18368307|gb|BJ200392.1|BJ200392
EST:     ACAGCTTCTACGAGTATGGGTGGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: ACAGCTTCTACGAGTATGGGTGGGG-AGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208377072|gb|DC910846.1|DC910846
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100444750|gb|BY982579.1|BY982579
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100386024|gb|BY969963.1|BY969963
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100359507|gb|BY947022.1|BY947022
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100444882|gb|BY982710.1|BY982710
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGGAAAC-CTTTCGTGAAAACATTAAACGA-ACCGAGCATTT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGG-AAACGCTT-CGTGAAAGCATTAAACGACAC-GAGCATTT
EST: gi|100435518|gb|BY960952.1|BY960952
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGNGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100399512|gb|BY972756.1|BY972756
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208400164|gb|DC904812.1|DC904812
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208391832|gb|DC942352.1|DC942352
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|67719022|gb|BJ969281.1|BJ969281
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100440118|gb|BY980404.1|BY980404
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208376766|gb|DC902947.1|DC902947
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|18360513|gb|BJ192576.1|BJ192576
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208350009|gb|DC910244.1|DC910244
EST:     AACAGCTCCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|208362445|gb|DC930978.1|DC930978
EST:     AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT
EST: gi|100428843|gb|BY959461.1|BY959461
EST:     AACAGCTTCTACGAGTATGGGTGGNGAGAGTCTTACCACTTTGCCAACAG                         ATGGCGCGGGGAAACGCTTCGTGGAAGCATTAAACGACACGAGCATTTTCT
genomic: AACAGCTTCTACGAGTATGGGTGGGGAGAGTCTTACCACTTTGCCAACAGgtgattatta ... ttaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacgtgccaagcattgtcatggctcatctgaatgtatgatgttattaaccgcagATGGCGCGGGGAAACGCTTCGTGAAAGCATTAAACGACACGAGCATTTTCTGGCTTTGCATCTTCATTTGAAACCAGGAATGAAG
                                           tattaac  putative branch site (score: 1)
                                   tatgatgttattaa  TA-rich tract