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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA

Basic information

species Physcomitrella patens
transcript PP1S207_23V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 7
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                ||     |||  | || ||   | |   |   | | | ||| ||  |  || | ||  | | |   |  |    |     ||    ||  |    | |   || |||   |||| |  |  | |||||||| |||||||| || ||||| ||||| ||||||||||| |||||||||||||||||||| || || || ||| |  | || ||||
----------------------------------------------------------------gtaagcaccctgtactattagca-tcatatagatcctgcagatt--tgagcaatgtcagctaaatttaattgtaatggataatctgatattaacctgtttctttttgtg-gcagTTGCTTGATTTGAGTGGTATTCTTACGGTGTTCTTCTGTGGTATTGTAATGTCGCACTATACCTGGCATAATGTAACAGAGAGTTCCAGGGTCACAACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 9
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggac--tatgaactcaatgcttgtttttcgt---ttattgca---tgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                                   || | ||    | ||| | ||     ||  |     | |||| ||||||||    ||   ||||   |||   |||||| |  |   || || ||   | ||||| ||  || ||||||| ||||||||||||||||| ||||| || |||||||| || || || ||||||||||| || ||||| ||  |  | |||||||
-----------------------------------------------------------------------------------cttatttttgtgtagcatgcactgatctgagttt--tctgtt-atccttttgcaaacaacatgataccaagatttgtttctaatattttcttccaattttcagCTGTTGGACCTGAGTGGAATTCTTACTGTCTTCTTCTGTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGTTCTAGGGTTACCACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 9
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                                    | | ||  |   |  ||      |  ||   | |   || ||   | ||| |     || |||  | ||||  | | || |  ||    ||||| | | |||  ||||||| ||||| ||||| ||||||||||| ||||| ||||| || ||||||||||||||||| ||||| || ||  |||| || ||||
-----------------------------------------------------------------------------------gtaagttttaaagaattttagtaatgttttatgga---tgctgcaacatttgt----cattaacata-tgctgatgtatc-tacatcttctgcagTTGTCCTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGGATTGTCATGTCTCATTATACCTGGCATAATGTGACTGAGAGTTCAAGAATCACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 8
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                      | ||||  ||    ||   ||    | || ||    | | |    ||  ||||            ||| |  ||  |||  ||    | |      ||   |  |    |||       ||||| | |  ||  ||||||| ||||||||||| ||||| ||||| ||||| ||||| || ||||| ||||||||||| ||||| |||||  ||||||| ||||
-----------------------------------------------------gtaagtt--ttaaagaacttcagaaatattttgtagagtatgtctttttgagctc-----------tatatctattttttcttgtgaaagggttctgatatat-ctacaagttc------tgcagTTATGGTATCTGAGTGGCATTCTTACTGTATTCTTCTGTGGGATTGTTATGTCTCATTATACTTGGCATAATGTGACTGAGAGCTCGAGAATAACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 8
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                      | ||||  ||    ||   ||    |||||||    | | |    ||      ||  |  | |  | | |||    | |  |  | |    | ||| |    | || |  | ||||   ||||| | |  ||  ||||||| ||||| ||||| ||||| ||||| ||||| ||||| || ||||| ||||||||||| ||||| |||||  ||||||| ||||
-----------------------------------------------------gtaagtt--ttaaagaacttcagaaatgttctgtacagtatgtcttttttgagctctatatcta--ttttttg---ttgtggtacattcattaatcattaacgggttctgatatattc--tgcagTTATGGTATCTGAGTGGCATTCTCACTGTATTCTTCTGTGGGATTGTTATGTCTCATTATACTTGGCATAATGTGACTGAGAGCTCGAGAATAACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 9
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                                    | | ||| |   |  ||      |  ||   | |   |||  |   || ||       |  ||   |||||  | | || |  ||    ||||| | |  ||  ||||||| ||||| ||||| ||||||||||| ||||| ||||| || |||||||||||||| || || || || ||  |||| || ||||
-----------------------------------------------------------------------------------gtaagttgtaaagaattttagtaatgttttatggatgctgtcaacatttgtc------gttgacatgatgctgatgtatc-tacatctgttgcagTTATGTTATCTGAGTGGCATTCTCACTGTATTCTTTTGTGGTATTGTTATGTCTCATTATACCTGGCATAACGTGACCGAGAGTTCAAGAATCACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: Vv14s0128g00020.t01 (Vitis vinifera), 3'ss of exon 8
--------gtctactttct---ctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaa---ctcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
        | ||   ||||      | | |  ||       ||| | || | |  | || |  | || |       | || | | || |   |  |    |        |      ||    |   |||   |||  ||   || || || | |  |    | ||   |  |   |   ||||| | |||||||||| |   ||||||||||| | || || ||||| ||||||||||| ||||| || || || |||||||||||||| |||||||| |||||||| ||||
gtaccaaagactggattctgaaaattttattttaaacactatatttctttgtaaaacatgtcctctttgccttccatacagtac-aactgaatggtactctttggttgacaagggactgg--tactgaaaactgtgaatatattccttgattgtagattgtttaaaattgataaatttgttatttcttgcagCTTTTATCTCTGAGTGGGATTTTAACAGTTTTCTTCTGTGGCATTGTCATGTCGCATTACACATGGCATAATGTTACCGAAAGCTCGCGAATAACAACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
||    ||||| |||  |    | |    ||   |||  | |||  ||   ||  |      |||    || | |   || |  |      ||  ||  |    ||||  |  |   | |||  | ||||  |||||  || |      | || || |   |  | |    ||| ||| | ||||| || ||||| ||||| ||||| |||||||| || ||||| ||||| ||||| ||||||||||| || |||||||| ||  || | ||||| |
gtaagatttctttctacccttcaagcacctt---tataagaatctcatcaagttctg----tttgaaatatacaaggactatcat------catccaattctgtgctttataag--gattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 8
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgac-ttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtt-tttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                 |||  |   || | ||   | || |  ||||       |||  || | |  || | |||   |     |  || |||    |   | ||| |  ||| |||   |   |       || || | ||   || | || |  | ||||||| ||||| |||||||| ||||| || || || || ||||| |||||||||||||| || || ||||| |||||||| || || ||  || | || ||||
---------------------------------gtaa-gatttcttttaacttcttgggcacttccctggcccctgttgtctattggcattgagtgttctatttagattcaacagtaga-tatatcaatcatttaaagtctt-----tccattgttagtaactttggttgt--cctgcagCTATTCTATTTGAGTGGCATTCTCACGGTATTTTTCTGTGGGATTGTAATGTCCCATTACACGTGGCACAATGTTACAGAGAGTTCAAGAGTCACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 9
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                 |||  |  |||  | |   |  | |  | |  |||   ||  |  |   | ||   |  |   |   ||  |   ||      ||| |  | || | |       | | || | |   |  |||| ||              ||||| ||||| || ||||  ||||| ||||| |||||||| || ||||| ||||| ||||| || ||||||||||| |||||||| ||  || | || ||||
---------------------------------gtaa-gatatcccacaacttgctgggaaatccttc---cctgacccctgtttgctctttatttatactcttgagccccaaaataagcacatggacctt------aattttggaattgttatttgtctt-------------acagCTGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ05720 (Selaginella moellendorffii), 3'ss of exon 7
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaact--caatgcttgtttttc----gtttattgcatgc-agCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                                                                         || |  |  ||||||| |    ||  |  || | ||| || |||    |  |||  ||| | |||| |||||| |||||||||| || || |||||||||||||||||||| ||||| || ||||| ||||| || || || || |||||  |||| || ||||
------------------------------------------------------------------------------------------------------------------------gtgatagtttttttctgtatagagaggtagcatttcttcttgttctcatgcgtatgccattccagCTGTTCTACCTGAGTGGGATCCTCACAGTCTTCTTTTGTGGCATTGTTATGTCACATTATACATGGCACAACGTCACGGAGAGCTCAAGAATCACAACCA

upper sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ32893 (Selaginella moellendorffii), 3'ss of exon 7
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgttttt-cgtttattgcatgc-agCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
                                                                                                                 | ||    | ||  | || |   |     |    |   | |||||| |   |  |||  ||| | |||| |||||| |||||||||| || || |||||||||||||||||||| ||||| || ||||| ||||| || || || || |||||  |||| || ||||
-----------------------------------------------------------------------------------------------------------------gtgagagttttt--ttctgtatagagaggtagcatttcttcttgttctcatgcgtatgccattccagCTGTTCTACCTGAGTGGGATCCTCACAGTCTTCTTTTGTGGCATTGTTATGTCACATTATACATGGCACAACGTCACGGAGAGCTCAAGAATCACAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA
 tgttgat  putative branch site (score: 4)
                               ttgttttt  TA-rich tract