Sequence
atgc intronic sequence ATGC exonic sequence...aatggtacgttaattgaattatttaatgctcggaagattttctaatgagatttgatgattttttttttctgggatgtggttgatgttgttgggtaaatagGTTGAAGGCAAAGAAGACAAATCAGAAGAGACAGAGAGAACCGAGATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGG
Basic information
species | Glycine max |
transcript | GLYMA19G40560.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40560.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 1
----aatggtacgttaattgaattatttaatgctcggaagattttctaatgagatttgatgattttttttttctgggatgtggttgatgttgttgggtaaatagGTTGAAGGCAAAGAAGACAA---ATCAGAAGAGACAGAGAGAACCGAGATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGG
| | | | || ||| | | || | ||| ||| | |||| ||||| | | || ||| || | |||| | ||||||||| | |||||||||| ||| ||||| |||||||||||||||||||| |||||||| || |||||||| ||||||||||||||||||||||||
ttgaggagaaattcagaaaggatacaaggatgtttgatttgcttgttcatggctttt--ttcttttctttttttcttttttgtttgcatttatggggt--acagGTTGAAGCCCAAGAAGACAACAAGTCAAAAGAGGCAGAGAGAACCGAGATTCGCCTTCATGACAAAGAGCGAGGTTGATCATCTGGAAGATGGGTACAGA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagatttgatgattttttttttctgggatgtggttgatgttgttgggtaaatagGTTGAAGGCAAAGAAGACAAATCAGAAGAGACAGAGAGAACCGAGATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGG
ggttgat putative branch site (score: 5)
tttgatgatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatggtacgttaattgaattatttaatgctcggaagattttctaatgagatttgatgattttttttttctgggatgtggttgatgttgttgggtaaatagGTTGAAGGCAAAGAAGACAAATCAGAAGAGACAGAGAGAACCGAGATTCGCGTTCATGACGAAAAGCGAGGTGGATCATCTGGAAGATGGGTACAGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - aatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtt