Sequence
atgc intronic sequence ATGC exonic sequencegtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g09630.1 (Oryza sativa), 3'ss of exon 3
---------gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataa-aacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
| ||| | | || | | |||| || ||| | | || | || || | || || | || || | || | ||||||||||| ||| |||||| ||||| | || ||| |||| | |||||||||||||| ||||||||||| ||||||||||| |||||| ||| || ||
gtaactcttctgggcttcctcagattgtctcattgtttggttctattgattgttcaagtagcaaggttttccaagttaatgttactgctattttttttcatcagAAAATGCTGAGAACATTCAGATACTCCGATACGAGCATGGGCAGAAGTATGAGCCGCACTTTGATTATTTCCATGACAAGGTCAATCAAGCACTGGGAGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g27340.2 (Oryza sativa), 3'ss of exon 4
gtaagctcctttgatttctataattgatttgttaaaatc-----ataaaggatataaaacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
| | || ||| | | |||||||| | | | | ||| | | | | | | |||| | | | | ||| |||||||| |||||||||||| | || ||| ||||||| || ||||||||||| || | |||||| || |||||||| ||||||| ||||| ||
----gtatccgaaatgcctaaccattctaggttaaaatttctctacctcattttttgtaatcattaatggtattatcattatcttgcccatgt--ttagATAATGGCGAATCCATTCAAATATTACATTATCAGAATGGCGAGAAGTATGAGCCACACTATGATTACTTCCATGACAAAAATAATCAAGCTCTTGGAGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g58880.1 (Oryza sativa), 3'ss of exon 4
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatc--ttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
|||| || ||| | | ||||| ||| || | | || | | | || || || ||| || | | | ||||| |||| ||| |||||| ||||| | || ||||| || |||| ||||| || ||||||||||||||||| ||||| || |||||||| | || ||
gtaaacttcttcaggtgtt-taatt--tttctttcagttatgagcgttggttaatgtcagctaacgaatctgcatttgtaacactgctttg-tcagAGAATGCTGAGAACATTCAGATACTCCGATACGAGAACGGACAAAAATATGATCCTCATTTTGATTATTTTCAAGACAAAGTCAATCAACTGCAGGGCGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G02110.1 (Glycine max), 3'ss of exon 5
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttcta-atcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
|| | | || ||| || | | || || | | | | || |||| ||| | | ||| | |||||| ||||| ||||| || |||||| ||||||||||||||||| | |||||||| || ||||||||||| || |||||||| | ||||||| | | |||||
---------gttagtagacaatatc-attctttgatccatttcagtatttt---cttttctttgcttcaatttaaacgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTATGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G04940.1 (Glycine max), 3'ss of exon 5
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttcta-atcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
|| | | || | || || | ||| | ||| | | || |||| ||| | | ||| | |||||| ||||| ||||| || |||||| ||||||||||||||||| | ||||| || || ||||||||||| || |||||||| | ||||||| | | |||||
---------gttagtagatgatatcg--ttatttgatccatttcag-tatttggttttct-ttgcttcaatttaaatgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G28480.1 (Arabidopsis thaliana), 3'ss of exon 5
------------gtaagctcctttgatttcta---taattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
|| | | | || ||| | |||||| | | || | | || ||| ||| || ||| ||| | ||| | |||||| ||||| || ||||| |||||| |||| |||||||||||| |||||||||| ||||||||||| || ||||| ||| ||| ||||| | || |||||
gtatttttggccatatgtacatagatttcctaattctgtctctttgtttagactttagttgct-tacaacttctcatctcttttttgtctgtgttg-----cggatcagAGAATGGTGAATCCATGCAAATATTGCATTATGAGAATGGTCAAAAGTATGAACCGCATTTTGACTACTTTCACGACCAGGCTAATCTAGAGCTCGGTGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G28490.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattc-cttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
|| | || |||| | || || | ||| | ||||| || | |||| | | | || | | |||||||||||| || || | |||||||||||||||||||||||| |||| ||||| |||||||| || |||||| | |||||| || | || |||||
--gtacttccgcgaggcatatacatttttctttttttttctaa------ttctgtttcttactctcatcttatctttatgtgttgtg--gatcagAAAATGGGGAAGCCTTACAAATACTGCACTATGAGAATGGTCAAAAATATGATCCGCATTTCGACTATTTTTACGACAAGAAAGCTCTAGAGCTAGGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaaggatataaaacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
acttgat putative branch site (score: 5)
tcttct CT-rich tract
atataaaacatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttctaatcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG