Sequence
atgc intronic sequence ATGC exonic sequencegtaactaactagttcaaaaacctaattagctagttcacgattttctcagcatcgaaaaaacctttaatttcacttccgtactttctttctttgtttttttttttttttttcttttcttgcagAGCTTGATTCCTTGCGCGAGTGTTGTGGAGAGAAACCTCTTAGCTGACACATCGAAGATCGTTGACAAGAACAGCAAGGTTTATAAGCGAAAAGGCGATT
Basic information
species | Glycine max |
transcript | GLYMA20G35390.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35390.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g04500.t01 (Vitis vinifera), 3'ss of exon 1
gtaactaactagttcaaaaacctaattagctagttcacgattttctcagcatcgaaaaaacctttaatttcacttccgt--actttctttctttgtttttttttttttttttcttttcttgcagAGCTTGATTCCTTGCGCGAGTGTTGTGGAGAGAAACCTCTTAGCTGACACATCGAAGATCGTTGACAAGAACAGCAAGGTTTATAAGCGAAAAGGCGATT------
|||| | || | | || ||| ||| | | | || | | | | | ||||| | || || | || | | | | | | || || | | || || || || ||||||| |||||||||||||||||| ||||| ||||||||||||| ||||||| | |||| ||| | |||||
gtaaatgac--gcttcaattcctttttaaaagtctggttgcataacaaatttcatgagcaaccaaacggactcttccttttacattttggattaatctcaaacgtggtgccttccgttttctagGGTCTCATCCCATGTGCCAGTGTTGCGGAGAGAAACCTCTTAGCAGACACGGCGAAGATCGTTGAGAAGAACAAAAT------CAAGCCAAAGGACGATTTAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcacttccgtactttctttctttgtttttttttttttttttcttttcttgcagAGCTTGATTCCTTGCGCGAGTGTTGTGGAGAGAAACCTCTTAGCTGACACATCGAAGATCGTTGACAAGAACAGCAAGGTTTATAAGCGAAAAGGCGATT
ctttctttctttgttt CT-rich tract
tactttctttctttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactaactagttcaaaaacctaattagctagttcacgattttctcagcatcgaaaaaacctttaatttcacttccgtactttctttctttgtttttttttttttttttcttttcttgcagAGCTTGATTCCTTGCGCGAGTGTTGTGGAGAGAAACCTCTTAGCTGACACATCGAAGATCGTTGACAAGAACAGCAAGGTTTATAAGCGAAAAGGCGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG