Sequence
atgc intronic sequence ATGC exonic sequence...taggaaccctaatgattctatgtttgcttaaaacctatcagaacttttggattgttctttgtttagtcagtgtatgaataattgaattttttatgttcagGCCCAGTGGTTAATGACATGTTCCATTGGCAAGCTACAATTATGGGTCCTGTAGATAGCCCATTTGCTGGCGGTGTGTTTATTGTGTCAATTCACTTCCC
Basic information
species | Glycine max |
transcript | GLYMA16G17800.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os04g57220.1 (Oryza sativa), 3'ss of exon 2
----taggaaccctaatgattctatgtttgcttaaaacctatcagaacttttggattgttctttgtttagtcagtgtatgaataattgaattttttatgttcagGCCCAGTGGTTAATGACATGTTCCATTGGCAAGCTACAATTATGGGTCCTGTAGATAGCCCATTTGCTGGCGGTGTGTTTATTGTGTCAATTCACTTCCC
| | ||| | | | | | || |||| | | | | | | | ||| | | ||| ||| || || || | | | ||||| || |||| | | ||||||||||||||||||||||| |||||||| || ||| |||||||||||||| || || || | ||| ||||| |||||
cctgcttaatcttgaatcactttctacattatttaaactgaactctatgtccaaaatttgttttactcatctcgtgc-tgactactt---ttgtctgttgtcagGTCCTGTGGGTGAGGACATGTTCCATTGGCAAGCTACTATTATGGGACCCTCAGACAGCCCATTTGCTGGTGGGGTATTCTTGGTGAACATTCATTTCCC
upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0015g01190.t01 (Vitis vinifera), 3'ss of exon 2
-taggaaccctaatgattctatgtttgcttaaaacctatcagaacttttggattgttctttgtttagtcagtgtatgaataattgaatttttta----tgttca--gGCCCAGTGGTTAATGACATGTTCCATTGGCAAGCTACAATTATGGGTCCTGTAGATAGCCCATTTGCTGGCGGTGTGTTTATTGTGTCAATTCACTTCCC
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ttgcatgccaaattgattataattttgctgttagtct-tcttagcct--aaaataatctttgt--agataccggat--ataattaaaatttttaaacctgtttatagGCCCTGTTGGTGATGACATGTTCCACTGGCAAGCAACTATTATGGGTCCAAGTGACAGCCCTTTCGCTGGAGGTGTGTTTCTGGTGTCCATCCACTTCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggattgttctttgtttagtcagtgtatgaataattgaattttttatgttcagGCCCAGTGGTTAATGACATGTTCCATTGGCAAGCTACAATTATGGGTCCTGTAGATAGCCCATTTGCTGGCGGTGTGTTTATTGTGTCAATTCACTTCCC
ttttttat CT-rich tract
tgtatgaataattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggaaccctaatgattctatgtttgcttaaaacctatcagaacttttggattgttctttgtttagtcagtgtatgaataattgaattttttatgttcagGCCCAGTGGTTAATGACATGTTCCATTGGCAAGCTACAATTATGGGTCCTGTAGATAGCCCATTTGCTGGCGGTGTGTTTATTGTGTCAATTCACTTCCC
- - - - - - - - - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatga