Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgctggtattttgcagtgtacatgtaacactgctctttggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ13375 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: GRMZM2G181151_T01 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacactgctctt-tggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
|||| | | || ||| || || ||| || | | || | |||||||| |||||||||||||| || ||||||| || ||||| |||||||||
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAG
upper sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: GRMZM2G181151_T03 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------------------------------------------------------------------------gtttgtgct--ggtattttg-cagtgtacatgtaacactgctctt-tggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG----------------------------------------------------
|||| | | || ||| || || ||| || | | || | |||||||| |||||||||||||| || ||||||| || ||||| |||||||||
gtgcttttctttgtcttttattcttgagttatctaatgttataccttcacatgcggcaggtctggaattatttataactaaatttagcatttcttattttctcatatttgatatagaatatgaagtatttgtttattttttactaccttgatagcttatctgtgttgatgtgatcacattttattttatttcagATTTATCCACCTATCAATGTCCTGCCATCTCTATCTCGATTGATGAAGGTAAGATAAGTTTTCTGTATGTTTTCAGCATTTATGTTGAAGGTTAGTTGTA
upper sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 11
------------------------------------gtttgtgctggtattttgcagtgtacatgtaacactgctctttggctgcttgtgtt----tcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
| || | |||| || | || | | || || | | ||| | ||||| |||||||| ||||||||| | ||||| ||||||||||| ||||||
gtaataaataactaccgctgaggccctgatcttactggtttcagtaatattatgatccggctctgaatgaatgtatctttgtttcttccctgaaaaacagATATATCCACCCATCAACGTGCTTCCATCCCTTTCTCGTTTAATGAAGMapped 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|169083324|gb|FE491368.1|FE491368EST: GGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAG ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
genomic: GGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAGgtttgtgctg ... tgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
EST:
gi|169083325|gb|FE491369.1|FE491369EST: GGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAG ATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
genomic: GGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAGgtttgtgctg ... tgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
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:
34 (upstream exon),
35 (downstream exon)
Score:
11ATATCACTCATCCGATTCCTGATCTCACTGGTTACATTACTGAGGGACAGATTTATGTGGACCGTCAACTCTACAATCGTCAGgtttgtgctg ... tgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
<
<
<
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctggtattttgcagtgtacatgtaacactgctctttggctgcttgtgtttcagATCTATCCACCTATCAACGTGTTGCCATCGCTTTCTCGTTTGATGAAG
atgtaac putative branch site (score: 11)
tatttt TA-rich tract