Sequence
atgc intronic sequence ATGC exonic sequence...tcttgtttatagaaaattggaacttcttcgcattttcacactcttaaaaataatcgcacacttcaaacacatatttaacttgaggaacatatgattgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGAAAGAGACAAGGATGATCCAAGGTATGTAATAACAACCTACGAAGGCATC
Basic information
species | Glycine max |
transcript | GLYMA04G05700.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g01470.t01 (Vitis vinifera), 3'ss of exon 2
--tcttgtttatagaaaattggaacttcttcgcattttcacactcttaaaaataatcgcac-acttcaaacacatatttaacttgaggaacatatgat-tgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGAAAGAGACAAGGATGATCCAAGGTATGTAATAACAACCTACGAAGGCATC
| | | ||| | || | || | || || | ||| ||| | | || ||| | ||||| || |||| || |||||||| || ||||||||||| || |||||| | || || ||||||||||||||||| | ||| ||||| | |||||| |||||||| || || ||||||
gatttgatcattagtcacacacaatattatcagttagaaactgctcaaagattaaatgcatgaaattcttcaaataatgaactttt----tatttgatgtgcagGAACTATTACAGGTGTTCAGTTGATGGATGCAATGTGAAGAAGAGAGTTGAAAGAGATAGGGAGGATCCCAAGTATGTGATAACAACATATGAGGGCATCMapped 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|192311930|gb|FK004547.1|FK004547EST: AAGTGGAGGAAGTACGGAAAGAAAATGGTGAAAAACAGCCCCAATCCAAG GAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGA
genomic: AAGTGGAGGAAGTACGGAAAGAAAATGGTGAAAAACAGCCCCAATCCAAGgtatgcctat ... atgattgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGA
EST:
gi|192311929|gb|FK004546.1|FK004546EST: AAGTGGAGGAAGTACGGAAAGAAAATGGTGAAAAACAGCCCCAATCCAAG GAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGA
genomic: AAGTGGAGGAAGTACGGAAAGAAAATGGTGAAAAACAGCCCCAATCCAAGgtatgcctat ... atgattgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaataatcgcacacttcaaacacatatttaacttgaggaacatatgattgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGAAAGAGACAAGGATGATCCAAGGTATGTAATAACAACCTACGAAGGCATC
atttaac putative branch site (score: 3)
aaacacatatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgtttatagaaaattggaacttcttcgcattttcacactcttaaaaataatcgcacacttcaaacacatatttaacttgaggaacatatgattgtagGAACTACTATAGGTGTTCAGTGGACGGATGCCAGGTCAAAAAGAGAGTTGAAAGAGACAAGGATGATCCAAGGTATGTAATAACAACCTACGAAGGCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - cttcttc
- - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - cgcacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacac