Sequence
atgc intronic sequence ATGC exonic sequence...gttagaatgtctaggtacttttcagaaagattcctgatgttctgtttcactttatcgggattgatttttcgcatgttctgccttttgtatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G35640.1 (Glycine max), 3'ss of exon 1
gttagaatgtctaggtacttttcagaaagattcctgatgttctgtttcactt-tatcgggattgatttttcgcatgttctgccttttg-tatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
| | ||| || | || | | | | ||| | || | | | || ||| | |||| |||| |||| |||||||| || || ||||| |||||||| |||| |||||||| ||||| ||||| |||||||||| || ||||||| |||||||||||| |||| ||| |||||
-tgtggcaatctgagtcttagtcccattc-tcctgaacgttgtaattgtttaatgtgaaagtttctttctaacatggaaatccttgcactatgagattgcagTTAGATCCTATGGAACAGAGGGGAGAAAAAAAGATGGTCCACAAGTTCCTTCAAGTGATAAGGTTTATGAATACATTCTTTTCCGAGGAAATGATATTAA
upper sequence: Vv02s0087g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G35230.1 (Glycine max), 3'ss of exon 1
--gttagaatgtctaggtacttttcagaaagattcctgatgttctgtttcactttatcggga--ttgatttttcgcatgttctgccttttg-tatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
|| ||| |||| | | || ||||||| | | || || | | || ||| | |||| |||| || |||| |||||||| || || ||||| |||||||| ||| |||||||| ||||| ||||||||||| ||| || ||||||| |||||||||||| |||| | | |||||
atgtggcaat-cctagcttagtcccatt----ctcctgatagtagtaattgtttaatgtgaaagtttctttctaacatggaaatccttgtgatatgagattgcagTTAGATCCTATGGAACAGAGGGGAGAAGAAAAGATGGTCCACAAGTTCCTCCAAGTTATATGGTTTATGAATACATTCTTTTCCGAGGAAATAATATTAA
upper sequence: Vv02s0087g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G45330.1 (Arabidopsis thaliana), 3'ss of exon 1
----gttagaatgtctaggtacttttcagaaagattcctgatgttctgtttcactttatcgggattgatttttcgcatgttctgccttttgtatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
| | || || ||| || | | || | || || | | | || ||| | ||| ||| | || || ||| |||| ||||||||| || | ||| || ||||| | ||||||||||| | |||||||| ||| |||||||||| || || | ||||||||| || ||||||||||| ||
gaatcatgagaggtgaagttaccaagcaaatgttaacttgtattgctattcaagtgtggcgttcttg--tgttca-atgat-tgtctattgattggttgtgcagTAAGATCATGTGGAACGGAGGGGAGGAAGAAAGATGGGCCGCAAATTCCGCCATGTGATAAAGTTTACGATTACATTCTTTTTCGTGGAAGTGACATCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcactttatcgggattgatttttcgcatgttctgccttttgtatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
gattgat putative branch site (score: 4)
attgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagaatgtctaggtacttttcagaaagattcctgatgttctgtttcactttatcgggattgatttttcgcatgttctgccttttgtatggtattgcagTAAGGTCTTATGGGACAGAGGGACGAAAGAAAGATGGCACACAAATTCCTCCAAGTGATAAAGTGTATGAATTCATTCTTTTCCGGGGAAGTGACATTAA
- - gaatgtc
- - - - - - - - - - - -agaaaga
- - - - - - - - - - - - - - - ttcctga
- - - - - - - - - - - - - - - - - - - - -ctgtttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcgcatg