Sequence
atgc intronic sequence ATGC exonic sequencegtacgagttggtactcaaaaaattcatttgaattatatatgtctgaaaattttcacaatgatgtctaattaaagtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG
Basic information
species | Glycine max |
transcript | GLYMA04G37710.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G37710.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G23700.1 (Arabidopsis thaliana), 3'ss of exon 11
gtacgagttggtactcaaaaaattcatttgaattatatatgtctgaaaattttcacaatgatgtctaattaa-agtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG-------------
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gt-tatctcgggacaaaggctagtc-ttaatatttgctatggcc-aaggtttccttgatactgtttacttaccagcctttggaattgat-caggtgggagTGATCAGAGCAAAACTGCTAGATTTTTAAGTGATCTACCTGGAGAAGGAAATATCGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCTGGCATCC
upper sequence: GLYMA04G37710.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G48860.1 (Arabidopsis thaliana), 3'ss of exon 11
gtacgagttggtactcaaaaaattcatttgaattatatatgtctgaaaattttcacaatgatgtctaattaa-agtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG------
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gctcgtctattgtctgctatagtttaaaaaaattctttg---cttgctgttgttgtaaatttttttacttatcaacatatgaaataa-tgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
upper sequence: GLYMA04G37710.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 11
------gtacgagttggtactcaaaaa--attcatttgaattatatatgtctgaaaattttcacaatgatgtc--ta---attaaagtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG
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gttagtttacttgttggttttacaactttattcatgactgttgtttaagttttcttttcatcgcttgtatttcattatgcattctatgtcatcctgcagGTGGTGAGGATCCAGATAGGAGTAAACTTGTCCGAGATTTGAGTGATCTAACCGGAGAAGGAAATATCGAGAGCATGCTTTCAGTTGAAATGGGTTTGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|23064600|gb|BU579373.1|BU579373EST: ACTTGTCATCTCTGCTGGACAAAAGGCTAAGGAGGAATCCTGGAACAAAA GTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTG
genomic: ACTTGTCATCTCTGCTGGACAAAAGGCTAAGGAGGAATCCTGGAACAAAAgtacgagttg ... catggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatatatgtctgaaaattttcacaatgatgtctaattaaagtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG
gtctaat putative branch site (score: 3)
aaaattttcacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgagttggtactcaaaaaattcatttgaattatatatgtctgaaaattttcacaatgatgtctaattaaagtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG