Sequence
atgc intronic sequence ATGC exonic sequence...aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 13
aagttcgt-tgaacatgctatcttagtaggtatcttcttttgttatc-atgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
||| | || | || ||| | | |||| |||| || | || || || | | || | || || || |||||| |||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||| ||||| ||||| |||||||||||||| || ||||| ||||
ccgttagaatggggaaactttctgttcata-acattctaatgttttctaggatacctttgtaactttctttcgt-ataattcatttgttgttgtttcggtagCTTTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTTTTACCTT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 13
aagttcgt-tgaacatgctatcttagtaggtatcttcttttgttatc-atgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
||| | || | || ||| | | ||||| |||| || | || || || | | || || || || || ||||| | |||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||| ||||| ||||| |||||||||||||| || ||||| ||||
ccgttagaatggggaaactttctgttcata-accttctaatgttttctaggatacctttgtaactttctttctt-ataattcatttgttgttgttttgatagCTTTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTTTTACCTT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 13
-aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
||| | | || ||| || | | ||| | ||| || || | | || || || || || |||||| |||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||| ||||| ||||| |||||||||||||| || || | ||||
gctgttagaatggcgaactttctgttcagaacattctaatggtttctacgacacctttgtgactttctttctt-ataattcatttgttgctgttttggtagCTCTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTCCTACCTT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 14
aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttg----acattattgatgtctctgtttaca---------ctgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
| |||| | | | || | | | | | | || | || | ||| || || || |||| | | ||| | ||||| |||| |||||||||||||||||||||||||||||||||||||||||||| |||| |||||| ||||| ||||| |||||||||||||| || ||| | ||||
------------cttgctgttagaatggggaaccttctgt-tcataacattctaatggtttctgggacacctttgtgattttctttcttataattcatttgttgttttggtagCTCTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCGTTTGCTGATGATGCCCCCCTTCTACCTT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
| | ||||| | ||||| || | | | | | || | || | ||| || || | |||| || || ||||||||||| |||||||| || |||||||| ||||| ||||||||||| || || ||||| ||||| |||||||||||||| | ||||
---------------gtaagtactttaggttgtctattttgc-ataaggttttaatgttggtctctagtacctgaaataattttttttttggtt-attagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
tattgat putative branch site (score: 3)
ctgtttc putative PPT
attattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - -ctgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgac