Sequence
atgc intronic sequence ATGC exonic sequence...aaaatataggtttattttgaataattgttatcacactctctcaatatagttgctgtatgctttattcacatgtggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 9
aaaatataggtttattttgaataattgttatcacactctctcaatatagttgctgtatgctttattcacatgtggcttctttttct-----ttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
| | | | || | | || || || ||| | | | | | | | ||| ||| | | || | || | |||| |||||||||||| || | ||||||||| || |||||||| ||| |||| ||||| ||||| ||||| || |||||||| ||||| || || || ||||||||
----tgccgaatattatttactttttcttctcttgagaaatcagtgtctctctcttttccctccttctt-cgtgacctaaattaccaaaacctctttctttgcagGGTTGTGATAGGCTATGATGAAGGTACTATTATGGTCAAACTTGGCCGAGAAGAACCTGTAGCCAGCATGGATAACAGTGGGAAAATAATTTGGGCTAAG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 9
---------------------------aaaatataggttta---ttttgaataatt--gttatcacactctctcaa--tatagttgctgtatg--ctttattcacatgtggcttctttttc----------tttcc---tacttt---acagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
|| || ||| ||||||||| | | ||| | |||| | | || |||| ||| | | | | || ||| || ||| | | | || ||||||||||||| || | |||||||||||| |||||||| ||| |||||||||| | ||| || ||||| ||||| || ||||| || || || ||| ||||
gtaagttttttctggatagaaattttgtaagtaatttcttaggccgttgaataatctgagtgggaaactgtgtcaaattgtgcctgaattatgaaattttcttatctttaactcttttctcataatcaaaattttcgggtgcattcaaacagGGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGAAGTACCTGTGGCTAGCATGGACAACAGTGGGAAAATTATTTGGTCTAAG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 9
--------------------------------------aaaatataggtttat-----tttgaataattgttatc---acactctctcaa--tatagttg--ctgtatgctttattcacatgtggcttctttttctttcc---tacttt---acagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
|||||| ||| | ||||||| | | | | || | ||| | | || | | ||| | | | || ||| || | | | | || ||||||||||||| || | |||||||||||| |||||||| ||| |||||||||| | || || ||||| ||||| || || || || || || ||| ||||
gtaagttttttgtggatagaatttttgcaattaatttcttaatataattttttaagcccttgaatagtgctgagtgggaagctgtgccaaattgtgcctgaattatgaaattttcttatccttaactcttttctcgtatcgggtgcattcaaacagGGTTGTGATTGGCTATGATGAAGGAACAATTATGGTCAAACTTGGTCGAGAAGTTCCTGTGGCTAGCATGGACAACAGCGGGAAAATTATTTGGTCTAAG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 9
-------------aaaatataggtttattttgaataattgttatcacactctctcaatatagttgctgtatgctttattcacatgtggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
|| |||| || | || | ||||| ||| || | || | | || | ||| | | ||| ||||||||||||||||| || | ||||||||||||||| ||||| ||| |||| ||||| || || ||||| ||||| | ||| ||||| ||||||||||||||
agggcgtttagagtggctaggagttttttagggatcagtgttagcac-----cttattaaactgatcatacgggaccatcaacaacgaatgtgttt--------gctttacagGGTTGTGATTGGATATGATGAAGGAACCATCATGGTTAAACTTGGACGAGAAATTCCTGTCGCTAGCATGGACAGTAGCGGAAAAATCATATGGGCTAAG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 9
aaaatataggtttattttgaataattgttatcacactctctcaatatagttgctgtatgctttattc----acatgtggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
||| ||| || ||| || | | || || | |||| || || | | | | | | | | | ||| | || |||||||||||||||| | ||||||||||||||| ||||| ||| |||| ||||| || || ||||| ||||| |||| ||||| ||||||||||||||
----cttagatttgttagaaatgatattgagaggtctacctggttctagtactccattgagttgtcctgcaaaaccttaccttgtccacattctcatttcacagGGTTGTGATCGGATATGATGAAGGAACCATCATGGTTAAACTTGGACGAGAAATTCCTGTCGCTAGCATGGACAATACCGGAAAAATCATATGGGCTAAG
upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 13
--------------------------aaaatataggtt-tattttgaataattgttatcacactctctcaatatagttgc-----tgtatgctttattcacatgt----ggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
|| || || |||| ||| | | ||||| | || | ||| | |||| || |||| | | | | | | || ||| ||||||||| || |||| ||| |||||| |||| ||||||||| |||| || || |||||| |||||||||||||| || ||||| || || |||||||||
gtaagtttctgatcttttactatgtcaatatttattccctattaaagatatatatcttcacatcataattatttctttgtgtaaatttatgtttccttcataacttacgagatggcaataccttgtctttttccagGGTTGTAATTGGTTATGACGAAGGATCCATAATGGTGAAACTTGGCCGTGAAATACCAGTGGCTAGTATGGATAACAGCGGAAAAATTATTTGGGCTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagttgctgtatgctttattcacatgtggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
cttctttttctttcct CT-rich tract
tttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatataggtttattttgaataattgttatcacactctctcaatatagttgctgtatgctttattcacatgtggcttctttttctttcctactttacagGGTTGTGATCGGTTTTGATGAAGGAACCATTATGGTGAAAATTGGTCGAGATGAACCAGTAGCTAGTATGGATAATAGTGGAAAGATCATATGGGCTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
aaaatat
- - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcacatg