Sequence
atgc intronic sequence ATGC exonic sequencegttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
gttggtgcttttcagagatattatagcc--tcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
|||| | | || | | | | | | ||||||| || | | ||| | | || | || | | || || |||||| || || ||||| ||| | ||||| || |||||||| || ||||| ||||||||| ||||||||||||||||||| ||||| || || ||||||||
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggtt-ttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
| || || ||||||| || | || || ||||| | | | || | | | || |||||| ||||||| ||||||||||| ||||||||||||||||||||||||||||| || || ||||| | || || |||||||||||||||||||| || ||||| ||
------gtattgcatccttattataaccaggtccttgactt--ttttagat----agagatattaaactagtgtatcatt-tttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
| || | |||||| | | || || ||||| | | || || | || | || |||||| ||||||||||||||||||| ||||||||||||||||| ||||||||||| || || ||||| | || || |||||||||||||||||||| || ||||| ||
------gtattgtatccttattatgacaaggtccttccttgacttttttagat--agtgatattaaactagtatatcatt-tttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 2
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
||| | | | | | ||| | | || | || | || ||||| || |||||| ||||||||||||||||||| || |||||||||||||||||||| |||||||| || |||||| | || | ||||||||||| |||||||| || ||||| ||
-----------------gtatccttg--taattaagtccttgactgt-tgctgatagtgataataaactaaaataacattttttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTGATTGCAAGCTAAAATTATGTGATTTTGGACTTGCTCGAGTTTCATTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccact---aataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
|| ||| || | ||| ||| || | | || ||||| || ||||| ||||||||||||||||||| || |||||||||||||||||||| |||||||| | ||||| | || || |||||||| || |||||||| || ||||| ||
----------------------gtatccttgtaattaagtc-cttgactgttgcagatagtgatattaaactaaaataacatt-cttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 2
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaa--aattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
| | ||| | | | | | |||| || || ||||| | | || | | | | | | | || || || |||| |||||||||||||| |||||||| ||||| || |||||||||||||| || |||||||||||||||||||| ||||| || ||||| || || || ||
---gttagtttctaaacagtctct---ttcac--ttgtgttatcattatgatataa--ggttattgaagagctacgtctctgtttgtttgcagCGAATGTGTTTCATCGGGATTTGAAACCAAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 1
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaata-aaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
| |||| || || | | | | || ||||| | | | || || || |||| ||| | || | |||| |||||||||||||| ||||||||||| ||||||||||| || || | || ||||||||||||||||| || |||||||||||||| ||||| || ||
gcgagtgccttggcttgagaaattcgtgtttccttttgtccattactgcttttcaaactcaatctgatggaaaacttttttattcgatacagCTAATGTGTTTCATCGTGATTTGAAGCCTAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttct-----tccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
|| |||| | | | | | || | | | || | || | | || | ||| ||| || |||| | |||| |||||||||||||| |||||||| || || || ||||| |||||||| || ||||| |||||||| |||||||||||||| ||||| || || || ||
----gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 2
-------gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattt-tatggtt--tcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
|| | ||||| | | || | | | | | | | | | |||| | ||| | | | | | ||| | | | ||| ||||| |||||||| ||| | |||||||| ||| | | || || || || |||||| |||| |||||||||||||| |||||||||||| | ||||
tgaaaatgtaactatatttcaagaagaatagtggattatgatctaat-gaatgtgtgtctcgtttggatgttgacgtgcttctatttgggtgatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
cactaat putative branch site (score: 2)
tttcttcc putative PPT
taataaaaattttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA