Sequence
atgc intronic sequence ATGC exonic sequencegtatgcactatcaagattcttagctttcaaaactccaacttggatacaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ32053 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ32053 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 11
---------------------------------gtatgcactatcaagattcttagct--ttcaaaactcc-----aacttggat---acaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
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cacttagtgttctatataaagcgtaaggcacttgt-tatgttgtcatgataatggggtgctgtacaaccttgctgaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGTCACACTTTGGAGTCTCTTCGAGGAATTAAA
upper sequence: EFJ32053 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 11
-------------------------------gtatg-cactatcaagat--tctta-gctttcaaaactccaacttggataca-------aactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
| || || ||| ||| | | | | | | | ||| | | | || | || | ||||||||||||||||||||| | ||||||||| | ||||| | ||||| |||| || ||||||||||| | || | || || ||||||||||| ||
taccaagtcatgttctatacatagtgaaaaattgtggtgctttcatgataatgtcatggtgtgataacatcgatgaaagttcagttttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAGTCTCTTCGTGGAATTAAA
upper sequence: EFJ32053 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 10
---------------------------------------gtatgcactatcaagattcttagctttcaaaactccaacttggat---acaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
|||| | | | | | | | | | ||| || || || | || | ||||||||||||||||||||| | ||||||||| | ||||| | ||||| |||| || ||||||||||| | || | || || ||||| ||||| ||
tatagcgcatagtgttctatttaaagcataaggcacttgttatgttgtcatgataatgtgatgctgtacagctcaaagttctattgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAA
upper sequence: EFJ32053 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA01G30400.1 (Glycine max), 3'ss of exon 11
------------------------------gtatg-cactatcaagat--tctta-gctttcaaaactcc------aacttggataca--aactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
|||| || ||| ||| | | | ||| | | ||| | | || | | || | ||||||||||||||||||||| | ||||||||| | ||||| | ||||| |||| || ||||||||||| | || | ||||| ||||||||||| ||
actaagttgtgttctatacatagtgaaaaattatggtgctgtcatgataatgtcatgctgtgataacattgctgaaagttcggttgttttaccttttcagTGTGATCCAGTTCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAATCTCTTCGTGGAATTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcactatcaagattcttagctttcaaaactccaacttggatacaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
ctctcc CT-rich tract
tttcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcactatcaagattcttagctttcaaaactccaacttggatacaaactctccagTGTGATCCAGTTCTGCTCTAAAGCATTTGCATTGTATGCGCGTGCAACCACAGCTCAAGAAATATTTGGTCTTACACTTGAATCCCTTCGTGGAATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA