Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttcttttcttttctacccaaatattctcttgtgcatttttccttctttcttcctttaactgtgtttgatatgattgttgtgtgcctattgctttacccagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 3'ss of exon 10
-----------------------------gtgagttttcttttcttttctacccaaat---attctcttgtgcatttttc----------cttctttcttcctttaactg------tgtttgatatgattgttgtgtgcctattgctttaccca----------gGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
| | || | | | | | || | | |||| || || ||| || | | | | || | | | | |||| ||| | | || ||| || ||| |||||||||||||| ||||||||| ||||||||||| || || |||||||| |
gtatggtcttctagaatatatatgttattttcaacactccctccatcccaaaataagtgcaaccctctagttcaaatttgaactacaaggctgcacttattttgggacggagggagtatgtaccatgaatgtacttttttaatctttttctgcaaatctttgtagGTACTTGCTTTTGAAGCTGGAAGGAAAGGGAAAATCAGAGTTAACACCATATCTGCAG
upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 10
gtgagttttcttttcttttctacccaaatattctcttgtgcatttttccttctttcttcctttaactgtgtttgatatgattgttgtgtgcctattgctttacccagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
|| || || | | | ||| | | | | |||| || || |||| | | | | | || || || ||| |||| ||||| |||||||| ||||||||||| || | |||||| ||||||||||| ||||||||||
gtaagcttcaactcccccccccccc---cgctgacatagatgtgtttcatttttacttctctctcttttaaattacatcat-atttcatgc-tatt-------tcagGTTCTTGCTTTCGAAGCAGGAAGAAAGCGCAAAATTAGAGTCAATACTATATCTGCTG
upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 11
gtgagttt----tcttttcttttctacccaaata---ttctcttg--tgcatttttcctt---ctttcttc--ctttaactgtgtttgatatga-ttgttgtgtgcctattgctttacccagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
|| || || || | | | ||| ||| | || | | | ||| | ||| | | |||| |||| | | | | | | | || | | ||| || ||||| |||||||||||||||||||| || | |||||| ||||||||||| ||||| ||||
gtaagcttcaactcctacccacaccaccaaaaaaaaactcaccagattacatactgacttagacgtgcttcatttttacttctctctcttttaaattacatcatatgtcatgcctt-ttcagGTTCTTGCTTTTGAAGCAGGAAGAAAGCGCAAAATTAGAGTCAATACTATATCCGCTG
upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G45990.1 (Glycine max), 3'ss of exon 10
gtgagttttcttttcttttctacccaaatattctcttgtgc--------------attttt----ccttc---tttcttcctttaactgtgtttgatatgattg---ttgtgtgcctattgctttacc----cagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
||||||||||||| ||| | | || || | | || | |||||| ||||| || ||| || | || || ||| || | | || | | | | || |||||||||||||||||||| || || || | | ||||||||||||||| |||||||| |
gtgagttttctttctctttttttcaaactactatattacacgaatagatatgtttatttttgtcaccttcattttcctttctccccttcccctttgaatatttgaaattatatcccaagttttctgccttttcagGTGCTTGCTTTTGAAGCTGGTAGAAAGAAAAGAATCAGAGTCAATACTATATCTGCAG
upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 9
gtgagttttcttttcttttctacccaaatattctctt--------------gtgcatttttcct-------tctttcttcctttaactgtgtttgatatgattg---ttgtgtgcctattgctttacc----cagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG-
|||||||||||| ||| | | || || | | || ||||||||||| | || ||| || | || || ||| || | | | | | | | || |||||||||||||||||||| || || || | | ||||||||||||||| |||||||| |
-tgagttttctttctctttttttcaaactactatattatacacatagatatgtgcatttttctcaccttaattttcctttctccccttcccctttgaatatttgaaattatatctcaagttttctgcctcttcaggTGCTTGCTTTTGAAGCTGGTAGAAAGAAAAGAATCAGAGTCAATACTATATCTGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttcctttaactgtgtttgatatgattgttgtgtgcctattgctttacccagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
ctttaccc CT-rich tract
tttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttcttttcttttctacccaaatattctcttgtgcatttttccttctttcttcctttaactgtgtttgatatgattgttgtgtgcctattgctttacccagGTGCTTGCTTTTGAAGCAGGAAGGAAACACAAAATCAGAGTCAATACGATATCTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA