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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGTTGACGGTCGGCAAGGTGGATGAGAACTACCGTCTCCTCTATGACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattcactcacatctccaagtgctttctttccgtagtaactttgttttggtgtcaacag

Basic information

species Selaginella moellendorffii
transcript EFJ14824
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ14824 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: Vv08s0058g00390.t01 (Vitis vinifera), 5'ss of exon 5
ATGTGTTGACGGTCGGCAAGGTGGATGAGAACTACCGTCTCCTCTATGACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGg------tactcattcactcacatctccaagtgctttcttt--ccgtagtaactttgtt-----ttggtgtcaacag-----------------------
||||  |  |  |   ||||    ||||||||| ||||||||| |||||||  |||||||||||||   | ||||| || |     |||||||| ||||      |  || |||  | | || || || || || ||||  | | |  || ||  ||     |  |||| ||                          
ATGTTGTATCCATTCCCAAGACAAATGAGAACTTCCGTCTCCTATATGACACAAAGGGCCGATTCAGACTCCACTCAATTAGGGATGAGGAGGCAAAGgtctgtattttccttctattaaatttcaaattgattactttaactgaatcaaattgattcaaaataagtgtgaatcattatgctgtctgtcacattgttc
















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|169039300|gb|FE448858.1|FE448858
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169073370|gb|FE481121.1|FE481121
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169053556|gb|FE463325.1|FE463325
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169073371|gb|FE481122.1|FE481122
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169100977|gb|FE500604.1|FE500604
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169057772|gb|FE465266.1|FE465266
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACGCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169114018|gb|FE516489.1|FE516489
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACGCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169053555|gb|FE463324.1|FE463324
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169054328|gb|FE460773.1|FE460773
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACGCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169074638|gb|FE481193.1|FE481193
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169042741|gb|FE451560.1|FE451560
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169053335|gb|FE460426.1|FE460426
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACGCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169041716|gb|FE449287.1|FE449287
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169097355|gb|FE498486.1|FE498486
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169074639|gb|FE481194.1|FE481194
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
EST: gi|169041419|gb|FE448977.1|FE448977
EST:     ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACGCCGAGGAGGCCAAG                         TTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG
genomic: ACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattc ... gtgtcaacagTTCAAGCTCTGCAAGGTCCGCGCCGTGAGGTTCGGTGCCAAGGGGATCCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTGTTGACGGTCGGCAAGGTGGATGAGAACTACCGTCTCCTCTATGACAGCAAGGGCCGATTCACCTTGCACTCGATCAACTCCGAGGAGGCCAAGgtactcattcactcacatctccaagtgctttctttccgtagtaactttgttttggtgtcaacag

- - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG