Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtgccacagcttattgacttacactattatgtgtaatttaatgttcaatgctgagttttcttttgtgttatatttgcagGAGATTATGGCTATGAAATTTAATGTCCTGGTGACTACTTATGAGTTCATCATGTATGACCGGGCAAGGCTTTCAAAAATTGATTGGAAGTATATCATAA
Basic information
species | Glycine max |
transcript | GLYMA18G46930.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46930.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g02290.1 (Oryza sativa), 3'ss of exon 7
--------gtaagtgtgccacagcttattgacttacactattatgtgtaatttaatgttca---atgctg----agttttcttttgtgttatatttgcagGAGATTATGGCTATGAAATTTAATGTCCTGGTGACTACTTATGAGTTCATCATGTATGACCGGGCAAGGCTTTCAAAAATTGATTGGAAGTATATCATAA
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ttctctgacttcggaatcacccgcttactaatgcattatctgatttggaaccacctgctcacggattttgcttcaatattctttttgattaatcttgcagGAGGTTCTGGCTGTGAAATTCAATGTTCTTGTAACAACATATGAATTTGTTATGTATGACCGTTCCAAGCTTTCAAGAATTGATTGGAAGTACATTATTA
upper sequence: GLYMA18G46930.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtgtgccacagcttattgacttacactatta-tgtgtaatttaatgtt-caatgctgagttttcttt-tgtgttatat---ttgcagGAGATTATGGCTATGAAATTTAATGTCCTGGTGACTACTTATGAGTTCATCATGTATGACCGGGCAAGGCTTTCAAAAATTGATTGGAAGTATATCATAA
|| || || ||| |||| | ||| ||| ||||| || | | |||||| | |||| | ||| || | || ||||| | || ||||||||||||||||| ||||| |||||||| |||||||||||||| || ||| ||||||||| ||||||||||||||||||| |
----gtaagctgt-gcaaatttgcttattttgttagtgtccaattttctgctatagtgctgaaaatcctttctttgtcatgtgttttatagGAGGTGTGTGCCATGAAATTTAATGTCCTTGTGACAACTTATGAATTCATCATGTATGATCGTTCAAAACTTTCAAAAGTTGATTGGAAGTATATCATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatgtgtaatttaatgttcaatgctgagttttcttttgtgttatatttgcagGAGATTATGGCTATGAAATTTAATGTCCTGGTGACTACTTATGAGTTCATCATGTATGACCGGGCAAGGCTTTCAAAAATTGATTGGAAGTATATCATAA
atttaat putative branch site (score: 4)
taatttaatgttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtgccacagcttattgacttacactattatgtgtaatttaatgttcaatgctgagttttcttttgtgttatatttgcagGAGATTATGGCTATGAAATTTAATGTCCTGGTGACTACTTATGAGTTCATCATGTATGACCGGGCAAGGCTTTCAAAAATTGATTGGAAGTATATCATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG