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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag

Basic information

species Oryza sativa
transcript LOC_Os07g42950.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G054136_T01 (Zea mays), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggct--ctatttctattattgactt-------tcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
|| |||||||||||||||||||| || ||||||||||| || ||||| |||||||| |||||  | ||| |||| ||||| || ||||| || || ||||||| | || ||  |||| || | | |   ||        ||   || ||     |||  ||||| |||   || | | || | | |   
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatgtccagtgtactctcaacaccatcttttactctgattctta-tctgaacattcgatatcaattctgtag---

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G851698_T02 (Zea mays), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactt---------tcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
|| |||||||||||||||||||| || |||||||| || || ||||| |||||||| ||||| || ||| |||| |||||||||||||| || ||||| |||| | || || ||| || ||| |   ||          ||   ||    ||    |  ||||| ||| | || | | |||| | |   
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAACAAGGCTTCCCAATGAAGCAAGGAGTTCTGACTTCTGGTCGTGTCCGCCTTCTGCTCCACAGAGgtatatagactgtatctccattgtactctcaacaccccctcttttacctgtggttcttatctgaacatttgatatgaattgtgtag---

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G851698_T01 (Zea mays), 5'ss of exon 4
---------GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
         || |||||||||||||||||||| || |||||||| || || ||||| |||||||| ||||| || ||| |||| |||||||||||||| || ||||| |||| | || || ||| || ||| |  |||                                                   
GAGTTTAAGGGTTATGTCTTCAAGATCATGGGTGGATgtgacaaacaaggcttcccaatgaagcaaggagttctgacttctggtcgtgtccgccttctgctccacagaggtatatagactgtatctccattgt--actc--------------------------------------------------

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G054136_T02 (Zea mays), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcgg----atattca----tgcccttgctctgaccatattatgttacttgtatggcag
|| |||||||||||||||||||| || ||||||||||| || ||||| |||||||| |||||  | ||| |||| ||||| || ||||| || || ||||||| | || ||   | | ||   |  ||| || |    || ||      ||    |  ||||| |||   || | | || | | |   
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatttacagtgtactctcagcaccatcttttactctgattcttatctgaacattcgatatcaattctgtag---

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G054136_T06 (Zea mays), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcgg----atattca----tgcccttgctctgaccatattatgttacttgtatggcag------------
|| |||||||||||||||||||| || ||||||||||| || ||||| |||||||| |||||  | ||| |||| ||||| || ||||| || || ||||||| | || ||   | | ||   |  ||| || |    || ||      ||    |  ||||| |||   || | | || | | |               
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatttacagtgtactctcagcaccatcttttactctgattcttatctgaacattcgatatcaattctgtagggactccctgcttcc

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G26190.1 (Glycine max), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaag--gctctatttctattattgactttcgg---atattcatgcccttgctctgacc-------atattatgttacttgtatggcag--------
|||||||||||||| || |  || ||||||||||| || || ||||| ||||| ||||||||||| ||| |||| ||||| || ||| | |||||||||||||  | |  ||| |  | || || ||    |||     ||||    | | | | ||||  |       ||||| |  |  || ||   ||         
GGCTATGTCTTCAAAATTACTGGAGGTTGTGACAAACAAGGATTCCCGATGAAACAGGGAGTGCTTACTCCTGGTCGTGTTCGACTTTTGCTTCACAGGGgtatgatgtagctttgatgcttttttttttgttcaacctatatgttcggcttagttctgtgccctttttatattttaatctttttaaatcaaatccattt

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA16G09330.1 (Glycine max), 5'ss of exon 2
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctcta---tttctattattgactttcggat-attcatgcccttgctctg-accatattatgt--tacttgtatggcag-------------
|| ||||||||||| ||||  || ||||||||||| || || || || ||||||||||||||||| ||  ||||  |||| |  ||| | || ||||| |||| ||  |   |     ||| ||| || | |||  ||| ||| |     ||    ||   |||  | ||    | ||||    |               
GGATATGTCTTCAAAATCACTGGTGGTTGTGACAAACAAGGATTTCCAATGAAGCAGGGAGTGCTAACACCTGGCTGTGTTCATCTTTTGCTCCACAGAGgtagaactgtaatgaagcttcaattttttaatttgtgatcatttaacatattataatgtgtcatcatctgcagcatttgttcaaccctctttttgtgcat

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA07G31840.3 (Glycine max), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatt-------tctattattgactt---------tcg---gatattcatgcccttgctctgaccatattatgttacttgtatggcag---
|| ||||| ||||| ||||  || || |||||||| || || ||||||||||||||||||||||| ||  |||| ||||| || ||| | || || || ||||  || | |||| |       |||||| |||  ||         | |   ||| ||     | ||| ||  ||  |   |||||     | |||| |   
GGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGATTCCCTATGAAGCAGGGAGTGCTGACCCCTGGTCGTGTTCGACTTTTGCTCCATAGAGgtaggaatgttctactgcttcaatctattgttgttttggtttataattgattgatgttggcagcattgatccaac--tgccatgttctgcatttggctgcgg

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA08G45770.1 (Glycine max), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaag--gctctatttctat-tattgactttcggatattcatgcccttgctctg-accatattatgttacttgtatggcag----------------
|||||||||||||| || |  || ||||||||||| || || || || ||||||||||||||||| ||| |||| |||||  | ||| | |||||||||||||  | |  ||| || | |  | | |||   |||  |||||     | | | ||||  || |  | | ||| || | |   |                 
GGCTATGTCTTCAAAATTACCGGAGGTTGTGACAAACAAGGATTTCCAATGAAGCAGGGAGTGCTGACTCCTGGTCGTGTTAGACTTTTGCTTCACAGGGgtatgatgtagctttaatgccctattttgttcttcctatattttctgcttagttctgtgcccttatgttttaatttttttaaatcaattccatttttgtg

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattg-actttcggatat-tcatgcccttgc-tctgaccatat-tatgttac-ttgtatggcag------------------------
|| || || |||||||||| ||| ||||| || ||||| |||||||| ||||||||||||||  | ||| | || ||||| |||||| | |||||| | |||||  |  |   ||  || || ||  ||||| | || | | |||   |||  | ||    | | | ||||    ||||    |                         
GGATACGTTTTCAAGATCAAGGGTGGTTGCGATAAGCAAGGTTTCCCAATGAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatat---tatgttacttgtatggcag---------------
|| || || |||||||||||||| || ||||||||||| |||||||| ||||| || ||||| |||||| | || |||||||| ||| | |||||| | ||||  | |  || |   |  | ||  | ||    |  |||      || |  | | | | |   | | ||| || | ||                   
GGATACGTATTCAAGATCATGGGAGGATGTGACAAGCAAGGTTTCCCAATGAAACAAGGAGTTCTCACTCCAGGGCGTGTCCGTCTTTTGCTTCACCGAGgtacta-gattccaccccattgataaaattatacagcttctctttttttcattaatcttctgtgttttttatttatgtgatctggttattgtgtttag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatg-cccttgctctgaccatattatgttacttg----tatggcag----------------------------
|||||||| |||||||||||||| |||||||||||||| || || || |||||||||||||| || ||| |||| |||||  | ||| | ||||| |||||| |  |  ||     | |  || |   |      |  |||   |||||    | |   | |||||  | |||    ||||  |                             
GGCTATGTTTTCAAGATCATGGGTGGTTGTGACAAGCAAGGGTTTCCCATGAAGCAGGGAGTACTGACTCCTGGCCGTGTTAGTCTTTTGCTTCATAGGGgtgagtaaactgggactgttctaatccttaaaaactgatcacaacccttaagttcatatttttatgcaagttgggtctatgagatttattacactttatgcttatttgagcag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv07s0191g00060.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttcta--ttattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag-----------------------------------------------------------------------------------------------------
|| ||||| ||||| || ||||| || ||||||||||| ||||| || |||||||||||||| || ||  | || || ||||  ||||| |||||||| |||    || ||    | |||  || |  |  ||  ||| |  |     |   |       |  ||| ||  ||    |                                                                                                         
GGTTATGTATTCAAAATAATGGGAGGCTGTGACAAGCAAGGTTTTCCAATGAAGCAGGGAGTACTGACCCCAGGCCGAGTCCAACTTCTGCTTCACAGAGgttggtagactggtctactactttgtgcatatttagatgtgaaacaattaaatgcagtttttatatattgttttggagtttatttgggcattttctcctgttagcattgtggttaatttgtctcattctgcatttgctcgatgcttgatgaaactaatacgaattggcattttgcttgaacag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaa---ggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag----------------------------------------------------------------------------
|||||||| ||||| |||||||| || ||||||||||| || ||||| ||||||||||||||| | ||| |||| |||||  | ||  | || || || |||        ||   ||| | || | |||     | ||    ||| || |     | |  ||         |  || | | ||                                                                            
GGCTATGTATTCAAAATCATGGGAGGCTGTGACAAGCAAGGGTTCCCAATGAAGCAGGGAGTGTTAACTCCTGGTCGTGTTAGTCTCTTGCTCCATAGAGgtgggtttttggtggtatat-tagtgttggtgcactgaccaccattccttcaagtttaagatggatcacggccagt-tagaagcatgttttgctaggaccatgttttgttgccttgtcatagatgatggatgaaaactgttctagttttgcttaagcag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S253_38V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgta--------aaaaggctc---tatttctattattgact-------ttcg-----gatattcatgcccttgctctgaccatattatgttacttgtatggcag-----------------------------------------------------------------------------------
|| |||||||||||||||||||| || || ||||||||||||||||| |||||||||||||| ||||||   || ||||| |  || ||  | ||||| ||||         | || | |   | ||  | | ||  | |       |  |     || ||| ||| ||| |||    |  |  |     |   ||   |  |                                                                                   
GGGTATGTCTTCAAGATCATGGGAGGCTGCGACAAGCAGGGTTTCCCAATGAAGCAGGGAGTTCTCACTCAAGGCCGTGTGCAGCTCCTGATGCACAGAGgtatggcgatagatagacacgggtgttggtgtcatgaagtaggctagtctgaacgagacatttatgtcctcgctgctcctcttgtgcaacaagcgttgagtggggttgtggagtggtttgatgggctcagtatgggtgcgagaatttagttctcccttttgtaacgattattgtgtgttgttgcag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S253_7V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaa----ggctctatttctattattgactttcggatat-tcatgcccttgct---ctgaccatattatgtt-acttgtatggcag------------------------------------------------------------------------
|| |||||||||||||| ||||| ||||| |||||||||||||||||||||||||||||||| |||||    || ||||| |  ||  |  | ||||| ||||   |      | |   |  |||   ||| |     || | ||  | |  |||    |||  || |    | | | |||  | | ||                                                                        
GGGTATGTCTTCAAGATTATGGGAGGTTGCGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTTCTCACACAAGGCCGTGTGCAGCTCTTGATGCACAGAGgtatggatataaacacagctggtatgtctgagtagatcatttatcgcgtcactgcctcgctgtgcagaaagcgatgagttgcgttgaagtacctttgatgcactcagtacggccgcgaggttatgattttcatctgtaacgactcttgcctgttgtcgcag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S311_33V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag-------------------------------------------------------------------------------------------
|| || || |||||||| ||||| || |||||||||||||||||||| ||||||||||| ||  | ||    |||||||| |  || ||  | ||| | |||| || |  |      ||     |  || | |     ||||||   ||||  ||  |  |   | |   ||||    |                                                                                            
GGATACGTTTTCAAGATTATGGGAGGATGTGACAAGCAGGGTTTCCCCATGAAGCAGGGTGTCTTGACCCAGGGACGTGTGCAACTGCTGATGCACCGAGgtacaacg-ttaaccacctgccgcttcctcttg-----tcatgctagtgctgggaataattgtcgatggatgtaacagaacgtcactatgcacacctacttacaaggcgcgtcttgattttcggttgcaactataatgcagtaaagtaatgaaatttttgttcttctgaag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S311_33V6.2 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTG-GACGTGTCC---GCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
                || |      || ||||||||  |  || |  | || |   |  |||  ||     | || | || |   |  | | | ||||      |   | |     |     |   ||  |    | |                                             
----------------TCGTCAATT-TTATGACAAGC--GTCTTGCTCAAGAGgtcagtggtgaccagcttggtgatgagttcaagggatacgttttcaagattatgggaggatgtgacaagcagggtttccccatgaag--------------------------------------------

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S31_322V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag-----------------------------------------------------------------------
|| |||||||||||||| ||||| || || || ||||||||||| || ||||||||||| ||| | |||   ||||| || |  || ||  | ||| | |||| ||      |   |       | |   || || | |  ||||          || || |  | |||  || | |  |                                                                       
GGATATGTCTTCAAGATTATGGGAGGATGCGATAAGCAGGGTTTTCCCATGAAGCAGGGTGTGTTGACTCAAGGACGCGTACAGCTCCTAATGCACCGAGgtacaatattgattaattggaacctcatggtctga-agttgtgcctgcaaggaatccgtactg-gatacgcgtctcgtcgtcatgcattcttgtactgcatgtcactaaaatctaatttcttaacgattgtacttgatgttttctcggcag

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ14726 (Selaginella moellendorffii), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
||||||||||||||||||||||| || ||||||||| | || ||||||||||||||||| || ||||   |    ||||| ||||| ||  |  || | ||||||| |    |  |||| || |    | ||     ||| |     || | |||      |  || ||  |        
GGCTATGTCTTCAAGATCATGGGAGGATGTGACAAGGATGGCTTCCCTATGAAGCAGGGCGTCCTCAAGACGAAGCGTGTGCGCCTCCTGTTAAACCGAGgtaaaacga---tgcttcttttttcttttctccctctttcgt---tctgatttga----gattcgtgaccag--------

upper sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ26393 (Selaginella moellendorffii), 5'ss of exon 3
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag
||||||||||||||||||||||| || ||||||||| | || ||||||||||||||||| || ||||   |    ||||| ||||| ||  |  || | ||||||| |    |  |||| || |    | ||     ||| |     || | |||      |  || ||  |        
GGCTATGTCTTCAAGATCATGGGAGGATGTGACAAGGATGGCTTCCCTATGAAGCAGGGCGTTCTCAAGACGAAGCGTGTGCGCCTCCTGTTAAACCGAGgtaaaacga---tgcttcttttttcttttctccctctttcgt---tctgatttga----gattcgtgaccag--------

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|29682891|gb|CB679166.1|CB679166
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|218498560|gb|FG955781.1|FG955781
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|218504172|gb|FG954522.1|FG954522
EST:     GAAGCA-GGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|58675684|gb|CK064371.1|CK064371
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|86594662|gb|CI255738.1|CI255738
EST:     GGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACC-TGCTGTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGG
genomic: GGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCT-TCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGG
EST: gi|58680867|gb|CK069554.1|CK069554
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|426742|gb|D22814.1|D22814
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|218490056|gb|FG943987.1|FG943987
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|4880943|gb|AU065242.1|AU065242
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|218494399|gb|FG963390.1|FG963390
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|218479219|gb|FG969099.1|FG969099
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
EST: gi|58591861|gb|CF990169.1|CF990169
EST:     CTTCTTCTTCACAGTGT                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGG
genomic: CTTCTTCTTCACAG-GGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGG
EST: gi|29682892|gb|CB679167.1|CB679167
EST:     GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCG-CTTTTTCTTCACAGGG                         GCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA
genomic: GAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 67 (downstream exon)
Score: 173

GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggc ... tgtatggcagGCACACCTTGCTTCCGTGGGTATGGCAGGCGTGATGGTGAGCGCAGGAGGAAGTCTGTCCGTGGTTGCATCGTCAGCCAGGACCTATCTGTTATTAACTT




<











<


<









Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTATGTCTTCAAGATCATGGGGGGTTGTGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTGCTCACTGCTGGACGTGTCCGCCTTCTTCTTCACAGGGgtaaaaaggctctatttctattattgactttcggatattcatgcccttgctctgaccatattatgttacttgtatggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA