Sequence
atgc intronic sequence ATGC exonic sequencegtaggtatacgcacaattccatttccttcattttctttgtgattaacttagttttttgctggtaaagaaaaaacagttttatggatttttttatattaatttgttgttcagACACGTGGTTCTGCCTCCTGAAGTTGCCAAACTGCTTCCTAAGAATCGACTTCTCTCCGAA
Basic information
species | Glycine max |
transcript | GLYMA12G08890.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08890.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G27960.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaggtatacgcacaattccatttccttcattttctttgtgattaacttagttttttgctggtaaagaaaaaacagttttatggatttttttatattaatttgttgtt-cagACACGTGGTTCTGCCTCCTGAAGTTGCCAAACTGCTTCCTAAGAATCGACTTCTCTCCGAA
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--------------------------------gtaaagctcttcaatctcgcttcttcttcctcca--attttcactctcac---ttctctaatcgtaatcgatcgatacagGCACGTCGTTCTTCCTCCTGAAGTCGCTAAACTTCTTCCAAAGAATCGTCTTCTCTCCGAA
upper sequence: GLYMA12G08890.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0061g00810.t01 (Vitis vinifera), 3'ss of exon 2
gtaggtatacgcacaattccatt-tccttcattttctttgtgattaacttagttttttgctggtaaagaaaaaacagttttatggatttttttatattaatttgttgttcagACACGTGGTTCTGCCTCCTGAAGTTGCCAAACTGCTTCCTAAGAATCGACTTCTCTCCGAA
| | || ||| | || || | || || || || ||||||| | | | | || |||| | | | | |||| ||| ||| || |||||||| ||||||||||| ||||||||||| | |||||||| |||||||| |||
---------gtaatagtttcatagtaatttgattgcattttgt---acctatttttttgg-gttcttgggagaattgtttgaaga-----tgtggatta------tgtacagGCATGTGGTTCTTCCTCCTGAAGTGGCCAAACTGCTCCAGAAGAATCGGCTTCTCTCGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctggtaaagaaaaaacagttttatggatttttttatattaatttgttgttcagACACGTGGTTCTGCCTCCTGAAGTTGCCAAACTGCTTCCTAAGAATCGACTTCTCTCCGAA
tattaat putative branch site (score: 2)
taaagaaaaaacagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtatacgcacaattccatttccttcattttctttgtgattaacttagttttttgctggtaaagaaaaaacagttttatggatttttttatattaatttgttgttcagACACGTGGTTCTGCCTCCTGAAGTTGCCAAACTGCTTCCTAAGAATCGACTTCTCTCCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG