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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA

Basic information

species Oryza sativa
transcript LOC_Os03g58040.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G178415_T02 (Zea mays), 3'ss of exon 3
-ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
   | |    || ||    || |       | |  || |   | |  | |  ||  |     |    |  | ||   |    | || ||   |  |  ||||||||||||||||| || ||||| ||||||||| | ||||| ||||| || || || ||||| || |||||||||||||| ||||||||||| ||||| |
atccatttccttcaaattaattttcctcttcatttaagactcattgaaatccgttggtgaaaaatctggtcctgatgtttgaaatcctttg-acaacccagGTTGATCCTGATGAAGTTAATGCCTTGGCACAATTGATGACTTGGAAAACAGCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTA

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G178415_T03 (Zea mays), 3'ss of exon 3
ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgact--agtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA----------------------------------------------------
                                                        | || |  |  |  |    |||  |  | || ||   |  |  ||||||||||||||||| || ||||| ||||||||| | ||||| ||||| || || || ||||| || |||||||||||||| ||||||||||| ||||| |                                                    
-----------------------------------------------------gttggtgaaaaatctggtcctgatgtttgaaatcctttg-acaacccaggttgatcctgatgaagttaatgccttggcacaattgatgacttggaaaacagCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTAGCCCTGGAGACCTGAGCATCTCTGAGCTTGAGAGGCTTACCCGAGTTTTTAC

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 3
-ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagca-agtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
    ||  | |  |  | |  ||| ||    ||  | | |    |||  |||||||  | |   |   || ||  |  ||| |  | |     | ||   ||||||| |||||||| || ||||| || |||||||||||||||||||| || || || || ||||| |||||||| || || ||||| || ||||| ||  
aacttttctgtgaaccagtccctggaactgttt--atatttgtatatggtgtgtactttagattctcggttctcactctgaatcatttaatggaataaatagGTTGACCCTGATGAAGTGAATGCTTTAGCACAACTAATGACATGGAAAACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGGATAGGGTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 2
-ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagca-agtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
    || || |  |  | |  ||| ||    ||  | | |    |||  |||||||  |||   |  ||| ||  | |||| |  | |     | ||   ||||||| |||||||| || ||||| || |||||||||||||||||||| || || || || ||||| |||||||| || || ||||| || ||||| ||  
aactttcgtttgaactagtccctggaactgttt--atatttgtatatggtgtgtacttttgattctcagttctcactatgaatcatttaatggaataaatagGTTGACCCTGATGAAGTGAATGCTTTAGCACAACTAATGACATGGAAAACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGGATAGGGTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 3
-ctcttagtatttaagactatctgaaaacacttccaaaataaagtatat-tgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
  | ||  ||||      ||    |||| |||     | | |  ||| | | | || | ||  ||      |   |||| |   ||||||    ||    ||||||| || ||||| || ||||| |||||||||||||||||||||||||| || || || ||||| |||||||| ||||| ||||| || ||||| ||  
gttatttatattctgacttac---aaaaaactc----agtgatttatctgtttataggttttaagttctatcactcaatcatatgtctttggc-ttgagtagGTTGAACCAGATGAAGTGAATGCTTTGGCACAACTAATGACATGGAAGACAGCAGTAGCGAATATACCATATGGTGGAGCCAAAGGAGGGATAGGGTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 2
--------ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
         | ||||   | |  ||| | | |  |  |||  |        | | || | || ||||     |||| |   ||   | |  | | |    ||    ||||||| || ||||| || ||||| |||||||||||||||||||||||||| || || || ||||| |||||||| || || ||||| |||||||| ||  
caaattgaattttag--ctcataactgttt-agtatgcttttagtgatttttctgtt-tataaggtt----taagttccctcacacaattatgtattggcttgagtagGTTGAACCAGATGAAGTGAATGCTTTGGCACAACTAATGACATGGAAGACAGCTGTAGCAAATATACCATATGGTGGTGCCAAAGGAGGAATAGGGTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 2
ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
      || | |   ||| | |           ||||  |||  | |||   ||  |  |||  |||||         || ||  ||   || |   |||||||| || ||||| || || || ||||| ||||| ||||||||||| || || |||||||| || || ||||||||||| ||||| ||||| || ||  
------gtttgttttactctgtttttttttcatcaaaccaaaacaaattcaatattg--gcatgaagta--------aaccagatttcggtaatcgacagGTTGAACCGGATGAAGTAAACGCTTTGGCTCAACTTATGACATGGAAAACAGCAGTGGCTAAGATACCTTATGGAGGAGCCAAAGGAGGAATCGGTTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 2
--ctcttagtatttaa----gactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagca--agtacttgcaatgactagtctttcatattatt-cagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
   | | |   ||| |    |||  | ||||   |    ||||   ||  |    || |||  || | |     |||  ||     |   |  | || | || || ||||||||||| ||||| || || || ||||| || || ||||||||||| || || |||||||| ||||| || |||||||||||||| || || || ||  
gtttttgaccttttgactttgaccttttgaaccaaaactcaaatgtaacaaaccagtatacaatttcggttttggtatatgatgcaaaccggttatcgttttcttgcagGTTGATCCGGATGAAGTGAACGCATTGGCTCAGCTCATGACATGGAAAACAGCAGTGGCTAAGATTCCTTACGGAGGAGCTAAAGGAGGGATTGGTTGTG

upper sequence: LOC_Os03g58040.2 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 4
---ctcttagtatttaagactatctgaaaac-acttccaaaataaagtatat-tgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
      ||   || ||    ||  | ||| | |||  | |  |   | | |  | ||| |  ||||||       ||| |     |  ||    |  || |  ||||||| || |||||||| ||||| ||||||||||||||||| |||||||| || || || ||||||||||| || || || ||||| || |||||||| |
ccagggttttcatgtagctttaaattaaatctactctccagcttgggaacagatttgtgctattgcagtttcagtttgga-----tgatcgcatagcttttgtagGTTGACCCAGATGAGGTAAATGCTTTGGCACAACTAATGACGTGGAAGACAGCAGTAGCAAATATTCCATACGGTGGGGCCAAAGGAGGGATAGGATGTA

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|88428464|gb|CI564932.1|CI564932
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|86904378|gb|CI308588.1|CI308588
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88359789|gb|CI622479.1|CI622479
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACT
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACT
EST: gi|29679310|gb|CB675585.1|CB675585
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88352374|gb|CI615628.1|CI615628
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATAC-ACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAG
EST: gi|88314615|gb|CI606683.1|CI606683
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACC-CCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88764543|gb|CI773661.1|CI773661
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCAC
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCAC
EST: gi|58609006|gb|CK037039.1|CK037039
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|58686901|gb|CK075588.1|CK075588
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88453274|gb|CI565716.1|CI565716
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|66915471|gb|CX102319.1|CX102319
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATC--ATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88405772|gb|CI609671.1|CI609671
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAAATAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88428743|gb|CI599459.1|CI599459
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88364791|gb|CI614409.1|CI614409
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88355078|gb|CI615347.1|CI615347
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88740721|gb|CI764229.1|CI764229
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGT
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGT
EST: gi|88362637|gb|CI608786.1|CI608786
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAAT
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAAT
EST: gi|88377000|gb|CI597784.1|CI597784
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88351099|gb|CI623321.1|CI623321
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAAC
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAAC
EST: gi|88763819|gb|CI773235.1|CI773235
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATG
EST: gi|58607484|gb|CK035517.1|CK035517
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACA
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACA
EST: gi|29673988|gb|CB670263.1|CB670263
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|163920153|gb|EG712059.1|EG712059
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|29674431|gb|CB670706.1|CB670706
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|33658195|gb|CF280809.1|CF280809
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGA
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGA
EST: gi|88390621|gb|CI609246.1|CI609246
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88391115|gb|CI593023.1|CI593023
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATC-TGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88364580|gb|CI612395.1|CI612395
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88359878|gb|CI617789.1|CI617789
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATAC-ACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCA-AACTAATGAGATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|88763881|gb|CI773297.1|CI773297
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATG
EST: gi|88357487|gb|CI623541.1|CI623541
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCAC
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCAC
EST: gi|88370806|gb|CI592572.1|CI592572
EST:     ACGACAATGCTAGGGGAC-TATGAAGGGTGGAATCAGATAC-ACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACA
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACA
EST: gi|88404005|gb|CI601415.1|CI601415
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATC-TGATGAGGT-AATGCGTTGGCA
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCA
EST: gi|88316149|gb|CI620427.1|CI620427
EST:     CGACAATGCCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCGTGATGAGGTCAACTGCGGTTGGCACAACCTAATGACATGGAA
genomic: CGACAATGC-TAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCC-TGATGAGGTCAA-TGCG-TTGGCACAAC-TAATGACATGGAA
EST: gi|58657687|gb|CK046367.1|CK046367
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
EST: gi|33675066|gb|CF303305.1|CF303305
EST:     ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAG                         GTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG
genomic: ACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACG

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: 69 (upstream exon), 75 (downstream exon)
Score: 63

TCCGAAAGATGATGGGACTTTAGCATCTTATGTTGGGTTTAGGGTCCAACACGACAATGCTAGGGGACCTATGAAGGGTGGAATCAGATACCACCATGAGgtgagaattt ... tattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA
                                      tctttcat  CT-rich tract
                                      tctttcatattatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcttagtatttaagactatctgaaaacacttccaaaataaagtatattgtgtacggttgcagcaagtacttgcaatgactagtctttcatattattcagGTTGATCCTGATGAGGTCAATGCGTTGGCACAACTAATGACATGGAAGACGGCCGTGGCTAATATTCCATATGGAGGAGCTAAAGGTGGAATAGGATGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - gaaaacac
- - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acttgca