Sequence
atgc intronic sequence ATGC exonic sequence...gcctagttgataagttgctatggttgctctgtttactacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G00470.4 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------gcctagttgataa--gttgctatggttgctctgtttactact-tctca---ttcttcaaggtttaaaac-tttgaagttcacaa-----tgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
||| |||| |||| | | | | || | | | | ||||| || | || ||| || |||| | | ||||| | | || ||||||||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||||||||| | ||||||||| || || || || || ||| ||||||
gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G00360.1 (Glycine max), 3'ss of exon 6
gcctagttgataagttgctatggttgctctgtt-tactacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
||| | ||| || | | | || | | | | | | ||| | | | | ||| ||||||||| ||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||||| ||||| || || || || || || | | ||||||
-----------------gtataactattctattatgatggcaatgatggatatgatgatgagatgcacatcattttaatccttttccttttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACACAGTTTCCTTTGTTACGTTAAACAAGGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
gcctagttgataagttgctatggttgctctgtttactact-tctcattc-ttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
||| | | || | || || | ||| | || | | | || | | | | | | || || ||| ||||||||| ||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||||| ||||| | || || || || || | | ||||||
-----------------gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaatttt---aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G40330.1 (Glycine max), 3'ss of exon 7
-------------------------------------------------------gcctagttgataagttgctatggttgc---tctgtttactacttctcattcttcaagg---tttaaaa-----ctttga---agttcacaa-----tgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
| || | || |||| | ||| || || | | |||| | ||||||| | ||| |||| ||| ||||| | | || ||||||||| ||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||| |||||||| || || || || || ||| ||||||
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S33_218V6.1 (Physcomitrella patens), 3'ss of exon 6
gcctagttgataagttgctatggttgctctgtttactacttctcattcttcaaggtttaaaactttgaagttcacaatgaa-tatgttcatgattat-----gcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
| | ||| | | || | | | || ||| | | | |||| | | | | ||| || || || || | |||||||||||||| |||| ||| | || || |||||| | ||||||||||||||||| ||||||| |||||| || | || || ||| ||| || ||
---gcactttttagtcattctagtctgcagagtcagagtgtttc---tctcatgtctcggacgtttggggctgatagtgagctaatttggtggttgtatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATTACAAGTACAATGACGAGAACCAAGTAACCTTTGTGACTATGAATAAAGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
gcctagttgataagttgctatggttgctctgtttactacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
||| | | ||| | || | ||||| | || || || | ||||||||||||||| ||||| || |||||||||||||| || |||||||| || ||||| ||||| | ||||| || || | ||||| || ||| ||||||
-----------------------------------gtacaagtggtgtttcca---ttgatcgcttgaaaatgctgattttgat-cccaaatctttgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT
upper sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
gcctagttgataagttgctatggttgctctgtttactacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttca-tgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
||| | | ||| | || | ||||| | ||| | || || | ||||||||||||||||||||| || |||||||||||||| || |||||||| || ||||| ||||| | ||||| || || | ||||| || ||| ||||||
-----------------------------------gtacaagtggtgtttcca---ttgatcgcttgaaa---atgctgattctgatctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
tttaaaactttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctagttgataagttgctatggttgctctgtttactacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
- - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaatg