Sequence
atgc intronic sequence ATGC exonic sequence...gctgttagtttaagaagctgactaactcaatttaacactgattataactttaaattttctgtggtttgtactcatgtagtagagtggtgacatatttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
Basic information
species | Glycine max |
transcript | GLYMA15G14130.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G04900.1 (Arabidopsis thaliana), 3'ss of exon 2
gctgttagtttaagaagctgactaactcaatttaacactgattataact-ttaaattttctgtggtttgtactcatgtagtagagtggtgacat-atttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
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tgagatgcatcatgatctttgtttggctagttatctgttgtttcttatggttatattatctct--tttatgtctagtaagtcgatagttttccttgtcctagGGAGGAAAGCATACATGAAACTCTTGGAAAAAGTATACAAGCAGAGTGACATTTCTTGGTTTACTCCAGTGGAGCTTTTCAAG
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0136g00390.t01 (Vitis vinifera), 3'ss of exon 3
-gctgttagtttaagaagctgactaactcaatttaacactgattataactttaaattttctgtggt-ttgtact--catgtagtagagtggtgacatatttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
|| || | || | | |||| || | | | ||| | |||| || | | || || | |||| || | | || ||||||| ||||||||||||||||||||| |||||||| ||| |||| |||| |||||| | |||||||| ||||| |||||||| |||
tactcttgctc----aatttcttttactcctctttaagtggttactaaatgaaaatattgcataatattctattgctatgtgctaaactcttggcatattttagGCCGGAAAGCTTATATGAAATACTTGGAAGGTATCTACAGCCAGAATGACATCGCCTGGTTTACTCCAGTTGAACTTTTCAAG
upper sequence: GLYMA15G14130.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S199_22V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------gctgttagtttaagaagctgactaactcaatttaacactgattataactttaaattttctg----tggtttgt---actca--tgtagtagagtggt-------gacatatttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
|| | | || | | ||| |||||| ||| | || | | | | | || || |||| || ||| ||||| | ||||| || |||| ||| ||||| | |||| ||| ||| | ||||||||| ||||||| |||||||||||||||||||| |||| ||
gcaagttcgatactccactttctttttaggatatcttgtatttatctttatgcagcatgctttgtgatttaact---ccaattttacagttcttccgcccctgactgtgatggaggtgcattgtttagctggattgtgatagaggattttaactggacatgttgcagGACGGGCTGCTTACAACGAGTATTTGAGTAAGTTGTACAAGCAGCATGACATAGCATGGTTTACACCAGTGGAAGTTTTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactttaaattttctgtggtttgtactcatgtagtagagtggtgacatatttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
ttataac putative branch site (score: 2)
taaattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgttagtttaagaagctgactaactcaatttaacactgattataactttaaattttctgtggtttgtactcatgtagtagagtggtgacatatttcagGCCGGAAAGCTTATATGAAGTACTTGGATAATATTTACAAGCAGAGTGACATATCATGGTTTACACCAGTGGAACTTTTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
gctgtta
- - - - - - - - gctgact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtggtg