Sequence
atgc intronic sequence ATGC exonic sequencegtatactgtctagtattccaaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ24836 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ24836 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
------------------------------------------gtatactgtctagtattccaaaccgactcattt----------agctcttatctgt-cacgtt--tttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
|||| | | || | | | | | | || | || |||| | || |||| ||||||||||||| || |||||||| |||||||| ||||| || || ||||| |||||||| | | | ||||| || || || ||||| || || |
gttctatctattactcccctctcatgcctcctttttttttgcttatatttttggatactaatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
upper sequence: EFJ24836 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 18
----------------------------------------------------gtatac---tgtctagt--attccaaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
| |||| | ||| | | | || || || | | ||| | | | | || | ||||||||||||| || |||||||| |||||||| ||||| || || ||||| |||||||| | | | ||||| || || || ||||| || || |
gttctatctattactcccctctcatgcctcctttttttttgcttatacttttggatacaaatacctaattaactttccacagaagcactaaagtctgaa-tattttgcatt-gcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
upper sequence: EFJ24836 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
----------------------------------------------------------------------gtatactgtctagtattc-caaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
| | | | || | | ||||| ||||||| | | | | | | || |||||||||||||| || || |||||||| |||||||| || ||||| || ||||| |||| || | ||| |||||||| || ||||||| ||| || |
gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttat-ttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtctagtattccaaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
cgttttt CT-rich tract
tttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatactgtctagtattccaaaccgactcatttagctcttatctgtcacgtttttgtagTTTGGCAAAGGTGTGTACTTTGCGGACCTGGTGAGCAAGAGCGCGCAGTACTGCTTCACGAACAGGTCCAATCCAGTGGGGCTGATGCTACTGTCCGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT