Sequence
atgc intronic sequence ATGC exonic sequence...gccaaatatcatttttaagctgtccactcaagcagtaactttgtcaaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 4
gccaaatatcatttttaagctgtccactcaagcagtaactttg-tcaaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG
| | |||| || ||| || | || |||||||| | || | |||| |||||||||||||| || || ||| |||||||||||||||||||| | ||||| || | | |||||| | | | | | ||||||| |||||| | || ||||
-------------------------------gtaactacttgactctgaaatgccatttaaaaataatgtttattgttattatatct---atgt-tatcagGTGAACAGCGAACATCCAATAGCCAAGGCCATTGTTGAGCACGCCAAAAAGATTATAGAAGAAGAACAAAATCATCCCTGGCCAGAAGCACGCGACTTTG
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 4
gccaaatatcatttttaagctgtccactcaagcagtaactttgtcaaccatg-atgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG---
| | ||||| ||| | | ||| | ||| | | || || | ||| | || | | | | | ||||||||| |||||||| ||| | ||||||||| ||||||||||||| || | ||| ||||| || ||||| ||| | ||||| |||||| |||||||||
-ttatgattgcaatttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGATGA---AGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G32190.1 (Glycine max), 3'ss of exon 5
gccaa-atatcatttttaagctgtccactcaagcagtaactttgtcaaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG---
| || ||| || || | || | | || || ||| || || || ||| ||| || | || || | | ||||||||| |||||||| ||| | || |||||||| |||||||||||||| ||| | ||||| || | ||| ||||| ||||| || ||| | |||||||
gtaggcattctattattgagtttcgcatgcttata--aagttattcatgaataat--tgtgaataaat-ttcgttgtataattggc-------tatgtcagGTGAATAGTGAGCATCCACTGGCTAAGGCCATAGTTGAGTATGCCAAAAAACTGAGAGATGATG---AGAACCCCATTTGGCCAGAGGCACGGGATTTTGTGT
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 4
gccaaatatcatttttaagctgtccactcaagcagtaactttgtcaaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG
|| ||| | | | | | | || | | ||| ||| || | |||| |||| | | ||| |||||||| ||||||||||| || ||||| ||||||||||| ||||| || |||||||||||||| |||| ||||| ||| ||||||| ||||| | |||||||
---------------------gtaaacttttggaaactcctggcctaca-------tcaaaagtaatatt-actatgttgatgctattt-tgtttatcagGTAAACAGTGAGCATCCGTTAGCAAAGGCCATTGTCGAGTACGCGAAGAAATTCAGAGACGACGAAGAGAACCCTGCCTGGCCAGAAGCCTGTGATTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG
aatgtttaaaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccaaatatcatttttaagctgtccactcaagcagtaactttgtcaaccatgatgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
-ccaaata
- - - - - - - - - - - -ccactca
- - - - - - - - - - - - - - - - - - - - - -tcaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttctgg