Sequence
atgc intronic sequence ATGC exonic sequencegtaagctttccttttgtgctcttttatgtaggctctagctcaatccttgcgctttgcttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
Basic information
| species | Selaginella moellendorffii |
| transcript | EFJ31209 |
| intron # | 38 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ31209 (Selaginella moellendorffii), 3'ss of exon 38
lower sequence: GLYMA07G14770.1 (Glycine max), 3'ss of exon 50
----------------------------------------------------------------------------------------gtaagctttccttttgtgctcttttatgtaggc-tctagctcaatccttgcgctttgcttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
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gtacatctaaacttgtggcatgtttttttatttagttcaatctaacaaattctagtcaaacctgttttgtgcttctgatcttgtgtttccaattatgttttatatggtctggatagcatatatttaattggatattcttgttttga--catagcagGAAGTTATCCAAGAACAAATTACTAGAGTCTTGTTAGAACGCCTAATTGTTAACCGTCCTCATCCCTGGGGTCTCCTCATTACTTTTATTGAGCTGATCA
upper sequence: EFJ31209 (Selaginella moellendorffii), 3'ss of exon 38
lower sequence: GLYMA03G27270.1 (Glycine max), 3'ss of exon 50
--------------------------------------------------------------------------------------------------------------gtaagctttccttttgtgctcttttatgtaggc-tctagctcaatccttgcgctttgcttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
||| | || | || ||| | | | || || || | | |||| || ||||||| | |||||||| ||||| || ||||| ||| | ||| | || || || |||||||||||||| |||||||| ||||| ||||| || ||||| || |
gtacatttaaacttgtggcattttttttttttatgtttagttcaatcaaacaaattcaagtcaaacaaattcagtcaaacctgttttgtgcttctaataaacttgtgtttctaattatgttttatatggtctggatagcatatatttaactggatattcttgttttga--catagcagGAAGTTATCCAAGAACAAATTACTAGAGTCTTGTTAGAACGCCTAATTGTTAACCGTCCTCATCCCTGGGGTCTCCTCATTACTTTTATTGAGCTGATTA
upper sequence: EFJ31209 (Selaginella moellendorffii), 3'ss of exon 38
lower sequence: Vv00s0144g00010.t01 (Vitis vinifera), 3'ss of exon 21
gtaagctttcct----tttgtgctcttttatgtaggctctagctcaatccttgcg--ctttgcttcaaa----gcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
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gtgagactcccccgactttcaacaccctcccacgggacatgatcaccttcttatagtctcaacctctgatggtgcagGAAATCATCCAGGAGCAAATTACAAGAGTTTTGCTGGAACGTCTGATTGTAAATAGACCCCACCCATGGGGCCTTCTCATCACTTTTATCGAGCTCATCA
upper sequence: EFJ31209 (Selaginella moellendorffii), 3'ss of exon 38
lower sequence: Vv00s0144g00210.t01 (Vitis vinifera), 3'ss of exon 4
gtaagctttcct----tttgtgctcttttatgtaggctctagctcaatccttgcg--ctttgcttcaaa----gcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
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gtgagactcccccgacttccaacaccctcccatgggacatgatcaccttcttatagtctcaacctctgatggtgcagGAAATCATCCAGGAGCAAATTACAAGAGTTTTGCTGGAACGCCTGATTGTAAATAGACCCCACCCATGGGGCATTCTCATCACTTTTATCGAGCTCATCA
upper sequence: EFJ31209 (Selaginella moellendorffii), 3'ss of exon 38
lower sequence: PP1S85_31V6.1 (Physcomitrella patens), 3'ss of exon 49
-------------------------------------gtaagctttccttttgtgctcttttatgtaggctctagctcaatccttgcgctttgcttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
| ||| || | | || || | || | | | ||||| | || | | |||| || || |||||||||||||| || || ||||| ||||||||||| || || | || ||||| ||||||||||| ||||| ||||| || || ||||
ctattcaggaagatctgttcaagaagctagagctgaaacagatcttctgcttttatttttacatttgttcttgaccgaagtcctttacatatgtat----gtagGAAATTATTCAAGAGCAAATCACCAGGGTGTTGCTTGAAAGGCTCATTGTGAATAGACCACATCCTTGGGGTCTGCTGATCACCTTCATAGAACTTATCAMapped 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|169021325|gb|FE431116.1|FE431116EST: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAG GAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
genomic: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgtaagctttc ... ttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
EST:
gi|169111515|gb|FE510375.1|FE510375EST: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAG GAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
genomic: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgtaagctttc ... ttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
EST:
gi|169111514|gb|FE510374.1|FE510374EST: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAG GAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
genomic: CGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgtaagctttc ... ttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTC
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:
24 (upstream exon),
31 (downstream exon)
Score:
8CTTGTTCCTCAACGCCATCGCCAACCAGCTCCGCTATCCAAACAACCATACGCATTACTTCTCGTGCGTGTTGCTCTACTTGTTCGCCGAAGCCAGCCAGgtaagctttc ... ttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtgctcttttatgtaggctctagctcaatccttgcgctttgcttcaaagcagGAGATCATCCAAGAGCAAATCACGAGAGTTTTGCTGGAAAGGCTCATCGTCAACCGTCCTCATCCGTGGGGTCTGCTCATCACTTTCATCGAGCTAATCA
ctttgcttc CT-rich tract
ttttatgta TA-rich tract
