Sequence
atgc intronic sequence ATGC exonic sequencegtatgccttctttctgtatcagctgtgatacttatgttgcctgctacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ20157 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ20157 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 13
---------------------------------------gtatgccttctttctgtatcagctgt-gatacttatgttgcctgctacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
| || ||| | || || | ||| || | || | | |||||| |||||||||||||||||||||||| | || | |||||||| || |||| || ||||| || |||||| ||| | |||| | || ||||
gtctgtaacaatactctttacttctttagagtgtttacattttgacttacatgtgcatatatgattgatctttctatt-tttattccagTGGGGAATTTGTTGTGGTTAACAAGCATCTTCTTCATGATTTGACTGAAATGGGCATTTGGACTCCTACTCTGAAAAACCAGATAATATATGATGATGGT
upper sequence: EFJ20157 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: GLYMA08G15360.1 (Glycine max), 3'ss of exon 15
----------------------------------gtatgccttctttctgtatcagctgtgatacttatgttgcctgc--tacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
| || |||| || ||| | |||| ||| || || | ||||||||||||||||||||| ||||||||||| || | || ||||| | | ||||| | | ||||| ||
gttttaaggctcattgccgtaccatcttattattttttgatatcttattg-atctattttgattgtta-actgtttgtctttcagtggtgaatttgttgtggtgaacaagCATTTACTTCATGACTTGACACAATCAAGAATA---ATATTATCTCTGAGGATG---------------------
upper sequence: EFJ20157 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 13
---------------------gtatgccttctttctgtatcag-ctgtgatacttat--gttgcctgc--tacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
|||| || | ||| || | | || | || || | |||||||||||||||||| || ||||||||||| || | || ||||| || ||||| | ||| | || | ||||| || | || | | ||||
gtttattgccatatcatcttattatgttttgatatcttattgatctatcttgattgttaactgtttgtctttcagTGGTGAATTTGTTGTAGTGAACAAGCATTTACTTCATGACTTGACTGAAATGGGACTTTGGTCTCCTACAATCAAGAATAATATTATCTATGAGGATGGT
upper sequence: EFJ20157 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 13
-----------------------------------------gtatgccttctttctgtatcagctgtgatacttatgttgcctgctacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
||| || || | | | || | | | || ||||||||||||||||||||| ||||||||| | || | || || || || |||| | ||| |||| ||| |||||| | |||| | | ||||||
gtttgttttgctaccctaacctgttcattttctaagatttagtac-ttttgttgccatctaagtctcctctttccttgtttctttgtcagTGGTGAATTTGTTGTGGTAAACAAGCATCTTCTTCATGACTTAACTGAGATGGGTCTTTGGTCACCTACTCTTAAGAACCAGATAATTTATGAGAATGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatgccttctttctgtatcagctgtgatacttatgttgcctgctacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
atacttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgccttctttctgtatcagctgtgatacttatgttgcctgctacagTGGTGAATTTGTTGTGGTTAACAAGCATTTGCTGAACGATTTGACCGATTTGGGAATATGGACACCGGATCTGAAGAACAAAGTAATGGCTTATAATGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC