Sequence
atgc intronic sequence ATGC exonic sequencegtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtgagaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
Basic information
species | Glycine max |
transcript | GLYMA19G42790.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 14
gtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtgagaatgaataatgaatatac-ttgtggat--tgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
|| |||||||| || | | | || | || | | ||||| |||| | ||| | ||| | || |||| || | ||| |||| |||||||||||||| || ||||| ||||||||||||||||| |||||||||| || || || |||||||| ||||||| ||| | || |
------------------gtacaagttttgttttgtcaagt---taggttttatatctgtct-------ctttgcaaatagtaaacatg--cagtgacttgaccttgtaaatatttcagATGCTTGATGCTGATAATGGTCGGCGGTTAGAGAGTTCTACTGGTCGAATAGCTACACGGGACATCGTTCAATTTGTCCCTATGAAAGACATCCATA
upper sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 12
-------------------------------gtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtga--gaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
| || | | | || || | ||| || | || || ||| | ||| ||| | | | | |||| || || | ||| | | |||| | |||| | || ||||||||| |||| |||||| | ||||||||||| || ||||| || || |||||||| || || ||||| || ||||| ||||| |
gtgtacccttgttttcttaatttagcattcaatacttcaattaatttatgccttagtggcatttca-gtacttaatgctttaatcggtactatgggtttcatgtctcaacagtgtttgattgtgttctgattcttattgt--ttggcagATCCTTGATGCTGATGATGGTCGTCGGCTAGAGAGTTCTACAGGACGTGTGGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
upper sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g00550.t01 (Vitis vinifera), 3'ss of exon 11
-------------------------gtcctactactcatccttgtccaagttttttt----ccttag-accccattaattatttagtagcatgaaaatgctttgttgttagtga--gaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
| |||| | | | | |||| | | || || || ||| | ||| ||| | | | | | || ||||| | ||| | | |||| | |||| | || ||||||||||| || ||||||| ||||||||||| || |||||||| || |||||||| || || ||||| || ||||| ||||| |
gtgtacccttgttttcatattttagcattcaatacttcagttaatttatgcttttgtggcatttcagtacttaatgctttaatgggtactatgggtttcatgtctcaacaatgtttgaatgtgttctgattcttattgt--ttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
upper sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g00570.t01 (Vitis vinifera), 3'ss of exon 15
-------------------------gtcctactactcatccttgtccaagttttttt----ccttag-accccattaattatttagtagcatgaaaatgctttgttgttagtga--gaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
| |||| | | | | |||| | | || || || ||| | ||| ||| | | | | | || ||||| | ||| | | || | | |||| | || ||||||||||| || ||||||| ||||||||||| || |||||||| || |||||||| || || ||||| || ||||| ||||| |
gtgtacccttgttttcataatttagcattcaatacttcagttaatttatgcttttgtggcatttcagtacttaatgctttaatgggtactatgggtttcatgtctcaacaatgtttgaatgtgttctgattcttatttt--ttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG
upper sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv12s0121g00080.t01 (Vitis vinifera), 3'ss of exon 14
------------------gtcctactactca-tccttgtccaagttt---ttttccttagaccccattaatta----tttagtagcatgaaaatgctttgt-tgttagtgagaatgaata-atgaatatacttgtggattg-cagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
|| | ||| | ||| | ||| ||| | | || || ||| |||| | | || |||| | | | | | | || | || ||| | | ||| ||| | || ||||||||||| || ||||||| ||||||||||| || |||||||| || |||||||| || || ||||| || ||||| ||||| |
gtgtacccttgttttcataatttagcattcaatacttcaattaatttatgctttattggcatttcagtacttaatgctttaatgggtacaatgggcttcatgtctcaacaatgttatatgtgttctgattcttattgtttggcagATCCTTGATGCTGATAACGGTTGTCGGTTAGAGAGTTCTACAGGACGTGTAGCAACTCGAGATATTGTACAGTTTGTTCCCATGAGGGAAGTGCGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaaatgctttgttgttagtgagaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
aatgaataatgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctactactcatccttgtccaagtttttttccttagaccccattaattatttagtagcatgaaaatgctttgttgttagtgagaatgaataatgaatatacttgtggattgcagGTGCTGGATGCTGATAATGGGCGTCGGTTGGAGAGTTCTACTGGTCGTGTAGCTACACGAGATATGGTGCAATTTGTGCCTATGAGAGAAGTACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT