Sequence
atgc intronic sequence ATGC exonic sequence...atggatgattttatgtctagcattcatgctatattgtgttatatattgaatattgaatatactgtatgctttgagaggttttaaacttaacttgctgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G21350.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 2
-----------------------atggatgattttatgtctagcattc-atgctatattgtgttatatattgaatattg--aatatactgtatgctttgagaggttt-taaa---cttaacttgctgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
||| ||||| | | | || | | || | || | |||| || | || ||| ||| || ||| || | | || | | | |||| | | | ||| || || ||||||||| ||||||| ||||| ||||||||||| |||| |||||||| ||||| ||||||||| |||||||| ||||| | |||||
gtatcctttcacatgtttgtcacatgtctgattctcttttgagaaaccgatagattttttttttatttactcaagcttgcaaatttagaacatgtttataaatgtatatgtatcccttagcataatctagTGGGACAGAAATATGGCGGATTGAAGATTTTAAGCCAGTTGCACTGCCAAAATCTGATTATGGTAAATTCTACTGTGGAGATTCATACATAGTTCTGCAG
upper sequence: GLYMA10G21350.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------atggatgatttta--tgtctagcat-tcatgctatattgt--gttatatat-tgaatattgaatatactgtatgctttgagaggttttaaacttaacttgc-tgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
| |||||| ||| | | || | || | | | ||| | | | ||| | | || | | ||| | | | ||| ||||| ||||| || || ||||||||||| ||| |||| ||||||| || ||||| ||||| || ||||||||||||||| |||||||| || || | |||||
gtatccctactactaccataccagtagatggcttcatgcaagctgccaccttattttagctgttttttttctctttctgtgtcttcggttccacacgcaagagttgtcttttctctttatgttg-gctatgtgctccttgacttgagcacagAGGGACAGAGATATGGAGGATCGAGGATTTCAAGCCAGTCGCTTTGCCAAAATCAGACTATGGCAAATTCTACTGTGGAGATTCTTATATAGTTCTGCAG
upper sequence: GLYMA10G21350.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 1
atggatgattttatgtctagcattcatgct-atattgtgttatatattga-atattgaatatactgtatgctttgagaggttttaaacttaacttgctgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
|| ||| | | | || ||| | |||||| | | | | || | | | | ||||| || || | |||||||| | ||||| || || ||||||||||| |||||||| |||||||||||| | ||||| || || || ||||| ||||||||||| || || || ||||| || |||||
-tgcatgcatgtgttcctgttattgttctagatattgaacaagctgctattgtcttaattgctatttttgcttctggaa-ttgtgaacttaacatcttgtagTGGCACCGAAATATGGAGAATTGAGAACTTTCAGCCAGTTCCTTTGCCAAAGTCCGATTATGGTAAATTCTACACAGGGGACTCTTACATTGTCCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaatattgaatatactgtatgctttgagaggttttaaacttaacttgctgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
aaacttaac putative branch site
ttttaaacttaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggatgattttatgtctagcattcatgctatattgtgttatatattgaatattgaatatactgtatgctttgagaggttttaaacttaacttgctgtagAGGAACTGAAATATGGAGGATTGAGAATTTTCAGCCAGTTGCATTGCCCAAATCTGAGTATGGCAAATTCTACACGGGAGATTCGTACATCATCTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
-tggatga
- - - - - - - - - -gcattca
- - - - - - - - - - - - - tgctata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct