Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgtgagtttttcaccctgttgatatcatctcaatatctctcccataagtgtttattattacaaaatagatggtcagatgcttaataactggttaggacttc...

Basic information

species Physcomitrella patens
transcript PP1S15_262V6.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os03g57130.1 (Oryza sativa), 5'ss of exon 6
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgtgagtttttcaccctgttgatatcatctcaatatctctcccataagtgtttattattacaaaatagatggtcagatgcttaataactggttaggacttc----
|| |||||  ||||||| |||   ||||| ||   ||| || || |||||||||||||| || |||||||| ||||| ||||||||||| || || ||| ||   | |||    |  | ||       ||  ||| |||    | |    | ||  | || |  |     | |  ||  ||  || |||    |||    
GTTGATGATTCTGAAGTCATTGGGTTTCTGCTGCAAACTGAAATAATTCCTCTGTGTCTCCGTACTATGGAGATGGGCAGTGAACTTTCGAAAACGgtgtgtagct-acctgcctcctttctctcttgtagttcttccactgttttcagctcttg-acaacacttcacatgttctttggta--tgtttaattattctaga

upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA08G43220.1 (Glycine max), 5'ss of exon 6
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgt-gagtttttcaccctgttgatatca-tctcaatatctctcccataagtgtttattattacaaaatagatggtcagatgcttaataactggttaggacttc-
|| ||||| || |||||||| | ||| || || ||||||||||| ||||| ||||| || || || ||||||||||| |||||||| ||||| || || |||||||        ||  | | | |||        ||      |     |  | |   ||| |  ||  | || | |  | |  ||  |    | ||  
GTTGATGATACAGAAGTTATAAGTTTCCTTCTTTCAACAGAGATAATTCCCCTGTGCCTGCGCACCATGGAAATGGGCAGTGAACTATCCAAAACAgttgagttttctgattctttattcttagtctttggtgaacttatgccatcacattgtctggtaaattgaat--ttagtttcc-atttcctcctccatatttaa

upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA02G46250.1 (Glycine max), 5'ss of exon 6
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgtgagtttttcaccctgttgatatcatctcaatatctctcccataagtgtttattattacaaaataga--tggtcagatgcttaataactggttaggacttc
|| ||||| || || ||||| | ||| || || ||||||||||||||||| ||||| || || | |||||||||||| |||||| | || || || || |||||      ||  || | | | |  | |   | |  || |    ||| ||   |  || |  |  || |       |   | | |  |  |  || |
GTTGATGATACAGAGGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGCTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACTgtaagtttactgatct--tgttttaaaccaatttggtttgacaaactattttgtttggatgaattgaacttgatttttatttccttcatttttctgagctac

upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA18G10400.1 (Glycine max), 5'ss of exon 6
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgt-gagtttttcaccctgttgatatcatctcaatatctctcccataagtgtttattatta-caaaatagatggtcagatgcttaataactggttaggacttc
|| ||||| || |||||||| | ||| || || ||||||||||| |||||||| ||  | ||||| ||||||||||| ||||| || ||||| || || ||||||         |   | |    | ||  | |  |     | | ||| |  | |     ||  ||  ||   | | |    | |  || |  ||  
GTTGATGATACAGAAGTTATAAGTTTCCTTCTTTCAACAGAGATAATTCCTCTATGCTTGCGAACCATGGAAATGGGCAGTGAGCTATCCAAAACAgttgagtttactgattcttcattctttggtaaacttatagcatcacattatttctggtaaattggatttattttccatttcctccctatttctttgagct--

upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: AT3G20800.1 (Arabidopsis thaliana), 5'ss of exon 6
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgtgagtttttcaccctgttgata-----tcatctcaata---tctctcccataagtgttt--attattacaaaatagatggtcagatgcttaataactggttaggacttc
|| ||||| || || || ||||  || || || ||||| || |||||||||||||| || || || ||||||||||||||||| || || || || || ||| ||| |   |   | ||     |||| |  |||   |  || |  ||||| | |  |   |   |||||   |  | ||||||  | |   | ||         
GTTGATGATACAGAGGTCATTAGCTTCCTTCTTTCAACTGAAATTATTCCTCTGTGCCTCCGTACCATGGAAATGGGGAGTGAGCTGTCAAAAACAgtaagtcttttaatttaccgttacattttcatgttcatatggtaccttctttaagtttcttgacagtcttaaaattcgtt-ttagatgcacatttgttagt---------

upper sequence: PP1S15_262V6.1 (Physcomitrella patens), 5'ss of exon 6
lower sequence: Vv19s0090g00930.t01 (Vitis vinifera), 5'ss of exon 8
GTGGATGACACTGAAGTTATTAATTTTCTACTCTCAACAGAGATTATTCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCAAGACCgtgagt-ttttcaccctgttgatatcatctcaatatctctcccataagtgtttattattacaaaatagatggtcagatgcttaataactggttaggacttc
|| ||||| || |||||||||| ||| || ||||||||||| || ||||| ||||| ||||| || ||||| |||||||||||| | || || || || |||      |   | |   | ||      ||    ||   |  | | | | | | |||    |  |    ||     ||  ||    | ||| | |  
GTTGATGATACAGAAGTTATTAGTTTCCTTCTCTCAACAGAAATAATTCCGCTGTGCCTACGCACCATGGAGATGGGGAGTGAATTGTCAAAAACAgtaagtgcccagattttataattctctaacttatgaagcttgtactattttctctcactacctgttgcaaaaacatcatttttttaggaagatagaaatg-

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|100368244|gb|BY948190.1|BY948190
EST:     TCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCCCAAGAC-                         GTGGCGACATTTATAGTTCAGAAAATTCTTCTAGATGACGTTGGTCTTGC
genomic: TCCTCTGTGTCTACGAACTATGGAAATGGGGAGTGAACTTTCC-AAGACCgtgagttttt ... ttgttggcagGTGGCGACATTTATAGTTCAGAAAATTCTTCTAGATGACGTTGGTCTTGC