Sequence
atgc intronic sequence ATGC exonic sequence...atgttgatggttaggtatttcttatttccatctattgattgggtacttttgtagttgtgagttaggacctaattcatgtaatttttatttctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
Basic information
| species | Glycine max |
| transcript | GLYMA12G14080.1 |
| intron # | 3 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g54910.1 (Oryza sativa), 3'ss of exon 3
-atgttgatggttaggtatttcttatttccatc-tattgattgggtacttttgtagt-tgtgagttaggacctaattcatgtaatttttatttctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
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aatagataaagcattatattcattatttttggcatatatatatatccctagtatattatgtttgctatagctc--tttaactaaccaattatactcca-acagTTTCGGAAGAGACCTGCAATGAAGTAGAGAGCTTGGTGTTTGATCTATTTGCAAATCTTGGTGCTACAG
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G128688_T02 (Zea mays), 3'ss of exon 3
-atgttgatggttaggtatttcttatttc--catctattgattgggtacttttgtagttgtgagttaggacctaattcatgtaatttttatttctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
|| |||| | | | | | | || | | || || ||| | | | | | | || | | | | | || | || | | | |||||| ||| || || || |||||||| |||||| |||| |||||||| ||||| || ||||||||||| |
aattttgaagctgaactttatgcaatgtaggctacttttaattagatgaaatgatgatgcta--ttcacaattggtgtaactctcttatgttgcatca-acagTTTCTGAAGAAACCTGCGATGAAGTAGAGAGCTTGGTTTTTGATCTTTTTGCAAATCTTGGTGCTACAG
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 3
atgttgatggttaggtatttcttatttccatctattgattgggtacttttgtagttgtgagttaggacctaattcatgtaatttttatt--tctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
| ||| | | | ||| | | || | || | || | | || | | | | ||||| | | | || ||| | ||| | |||||| |||||||| ||||||||||||||||| || || |||||||| ||||| || ||||||||||| |
agattgccga--aacattctctcttctgaatttctttactgaatttgcaactttttctttggcgtgcaccaattcttctgttcttgattgttttttttgcagTTACTGAGGAGAGGTGTGATGAAGTTGAGAGTCTAGTCTTTGATCTTTTTGCAAATCTTGGTGCTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgtagttgtgagttaggacctaattcatgtaatttttatttctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
acctaat putative branch site (score: 3)
tttttatttctttat putative PPT
taattcatgtaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttgatggttaggtatttcttatttccatctattgattgggtacttttgtagttgtgagttaggacctaattcatgtaatttttatttctttatacagTTAGTGAGGAGACATGTGATGAAGTTGAGAGCCTGGTGTTTGATCTATTTGCCAACCTTGGTGCTACTG
- gttgatg
- - - - - - - - - - - - - -ccatcta
- - - - - - - - - - - - - - - - - - - - - - - - - - agttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtaa
