Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtctaatatcgcttcctttgtagttctacatggaattcagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
gtaatgt-ctaatatcgcttcctttgtagttctac-atggaattcagattcaat------aagcttatattttcgagtacc---ggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
|||||| | | || || || | || | || ||| | | |||||| || | | | | || | | ||| | ||| |||||||| |||||||| |||||| |||||||||| ||||| |||||| ||||||||||||| || |||||||||||||| |
gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA-----------------
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G45380.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------gtaatgtctaatatcgcttcctttgtagttctac-atggaatt-----cagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
|| ||| || | || || || | ||||| | | | | ||| | || | | || | || | ||||||| |||||||| || || ||||||| || || ||||||||||||||||| ||||| || || || ||||| || |||||||| ||||| |||
gtaaaactataattctaataattataattgatgatataaagttataaaacactccataatctttgacgtataatttaactgtagaattttacttaaagttattaatttgatttatgttggtcgatgggtgaatagTGGACATGGGCTGCGACCATACTGCAAAGTTCAAACGTAGCATGGCAGTATGGGGTTAGTGGACCGTTTTGGTACGCTAGTGGAGCCACCATACAG
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S409_42V6.1 (Physcomitrella patens), 3'ss of exon 2
-------------------------------------------gtaatgtctaatatcgcttcctttgtagttctac----atggaattcaga-----ttcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG----
| ||||| | || ||| | | | ||| | || | | | | | | | | | || || || |||||||| |||||||| || || || || |||||||| || || |||||||| |||||||| || ||||||||||| || ||||| || || | |||
gtatggatcatgtgcacgaggaatcgaatgtgtaattgtgcctttgcagtctagcagttctcaaattgcaactgtgttgtaatgaattttcgtgattctccgttgtgatggtggcctggggtggatgtg-gtgcagTGGACATGGGCTGCAACCATTTTACAGAGCTCCAACGTGGCGTGGCAGTACGGAGTTAGTGGGCCTTTCTGGTACGCTAGTGGCGCCACTGTGCAGGTGC
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S257_108V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------gtaatgtctaatatcgcttcctttgtagttctacatg-gaattcaga--ttcaataagcttatattttcgagtaccggtctg-------------tacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG----
| || | | ||| | | | | | | ||||||| || | || | | | | | ||| |||||||| |||||||| || || | || || |||||||| || |||||||||||||| ||||| || ||||||||||| ||||| || ||| | |||
gtaggccaaagtttcgcaacattagtcggtattaacttcaaaatcgttgacgaggattcagaagttttagaaacgttggctgacagacatgaccctggttgtggttgtttcgcagTGGACATGGGCTGCAACGATTCTCCAGAGTTCCAATGTGGCCTGGCAGTATGGAGTAAGCGGTCCCTTCTGGTATGCAAGTGGCGCCACCGTGCAGGTGT
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ06356 (Selaginella moellendorffii), 3'ss of exon 2
gtaatgtctaatatcgcttcctttgtagttctacatggaattcagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
|||| |||| || | ||| | || ||| | ||| || | ||| || | ||||||||||||| || ||||||||||||||||| ||||| || ||| | || || || || ||||| ||||||||||||||||| |||||||| |||
-----gtctgga---gcttgctcgtca---ctattcagtgttggagctcagt--gctcat-tgctcgtgttct---------agTGGACTTGGGCAGCAACAATCTTGCAAAGCTCGAATGTTGCCTGGGAATACGGTGTCAGTGGCCCGTTCTGGTATGCCAGTGGGGCTACCATTCAG
upper sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ26403 (Selaginella moellendorffii), 3'ss of exon 2
gtaatgtctaatatcgcttcctttgtagtt-ctacatggaattcagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
|| ||| | || ||| | || || | ||| || | ||| || | ||||||||||||| || ||||||||||||||||| ||||| || ||| | || || || || ||||| ||||||||||||||||| |||||||| |||
------------gtctggatcttgctcgtcactattcagtgttggagctcggt--gctcat-tgctcgtgttct---------agTGGACTTGGGCAGCAACAATCTTGCAAAGCTCGAATGTTGCCTGGGAATACGGTGTCAGTGGCCCGTTCTGGTATGCCAGTGGGGCTACCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacatggaattcagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
aataagcttatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtctaatatcgcttcctttgtagttctacatggaattcagattcaataagcttatattttcgagtaccggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT