Sequence
atgc intronic sequence ATGC exonic sequence...atttactttttacactgttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
Basic information
species | Glycine max |
transcript | GLYMA15G23150.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G521844_T01 (Zea mays), 3'ss of exon 3
---atttactttttacactgttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
||||| ||| | ||| | ||| | | | ||| | || | || ||| | || | || | ||| | | ||||||||||||| ||||||||||||||||||||||| ||| |||| ||||| || || ||| || ||||| ||||||||||||||| | || |||||
gtaatttatctttgcc----ttgatctattctattgcacattctttgtttcttgtttattatcattcttg--acgattatcaaattg-ttgtactgttttcagATGAGATGACTTACGTGAATCTTCAACTGAATCCTGAACGATACACTGGCTATACCGGTGATTCAGCAAGGAGGATATGGGATGCTATTTATAAAGAGAA
upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G108115_T01 (Zea mays), 3'ss of exon 3
---atttactttttacactgttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
||||| | ||| | || | || | | || ||| || | | || | | || ||| | | || | || | |||| | | | ||||||||||||| ||||||||||||||||||||||| ||| |||| ||||| || |||||| || |||||||| |||||||| ||| | ||| |||||
gtaattta-tctttgccttgatctagtttattg--cacattctttgattcttattt-atcatcattc--atgatgattatcaaattg-ctgtattgttttcagATGAGATGACTTACGTGAATCTTCAACTGAATCCTGAACGATACACTGGCTATACTGGTGATTCAGCAAGAAGAATATGGGACGCTATTTACAAAGAGAA
upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G38960.3 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------------------atttactttttacact-gttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
|| || | || | || | | | | || || ||| | ||||| | || | | | | | | | |||| |||||||| |||||||| || ||||||| || ||||| ||| | || ||||| || | ||| ||||| || |||||||||||||| ||| | |||||||||||
gtaacttttctttacagtctacttcatttttgattcttacatgtcgaaactctatcgctacttcatatataactggctcatgagatgatatgtaacaagtaggggttttagcatcgaattgctatgtgttagatgcagtttttgatgactgtatatatgat-cgcagATGAAATGACATATGTTAATCTTCGGCTTAATCCTGAACGGTACACTGGCTATATTGGCCCATCAGCTAGAAGGATATGGGAAGCTATATACTCTGAGAA
upper sequence: GLYMA15G23150.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 3
atttactttttacactg-ttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttg-----atatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
| ||| || || || || | | | | | || | | || | |||||| | ||||| | | | ||| || ||||| ||||||||||| ||||||||||||||||| || ||| | || ||||| || ||||||||||||||| ||||||||||||||||| | || |||||||
------caatgacattgcttagtcaataacactccatgtttcttttcttttcttaagtttctttaatggtttaataaagcttttgatggttcattttcatttgcagCGGAGATGACATATGTGAATCTTCAACTGAACCCTGAACGCTACACTGGATATACTGGTCCATCTGCACGAAGGATATGGGATGCTATTTATACTGAGAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|13477810|gb|BG507539.1|BG507539EST: ATGGACAGAAATAGACAATCCATGGACAAATGATGATGAGACTGACAATG ATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTT
genomic: ATGGACAGAAATAGACAATCCATGGACAAATGATGATGAGACTGACAATGgtgcgttact ... tgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
gtttgat putative branch site (score: 5)
aagaaaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttactttttacactgttggtgtatgaaaattaaatcattttataataaattgaacttctttccaagaaaaataagcatgtcaactgtttgatatgcagATGAGATGACATACGTGAATCTTCAACTGAATCCGGAAAGATATACTGGTTACACTGGTCCATCTGCAAGAAGGATATGGGATGCTGTCTACTCTGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG