Sequence
atgc intronic sequence ATGC exonic sequence...ttgttttctctttcttgtctaagtttctattggaaagtgttttttcccctgaaaatgttttgacaagtaaatacaatactgaattgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
Basic information
species | Glycine max |
transcript | GLYMA05G07960.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g49900.1 (Oryza sativa), 3'ss of exon 2
ttgttttctctttcttgtctaagtttctattggaaagtgttttttcccctgaaaatgttttgacaagtaaatacaatactgaattgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
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----------------gtaagaattggtatcaatttct-ctagttagtatgcacgtgcttaccccacattttgatctgatgggtttctatttgtatgtagTGGGCTCCTTGCCATTCAATTGTTGCAGCGCCGTTGCTTATTGCGTTTGAGCTGCTGCTTTGCATATATCTCGAAAGTTTGAGAG
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18470.1 (Arabidopsis thaliana), 3'ss of exon 2
ttgttttctctttcttgtctaagtttctattggaaagtgttttttcccctgaaaatgttttgacaagta--aatacaatactgaattgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
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gtatgtcccttttcactttcttacctcttttagcaaa-atatcactcaatgtcgttcctatgatttgtactgatgtgtttatgatcccgtttggt-ttacagTGGGCTCCTTGCCATGCTGTTGTCGCGACACCGTTACTTGTAGCATTTGAATTACTCCTCTGTATATACCTCGAGAGTTCTTATG
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g04160.t01 (Vitis vinifera), 3'ss of exon 2
--------ttgttttctctttcttgtctaagtttctattggaaagtgtttt--ttcccctgaaaatgtt--ttgacaagtaaatacaat-----------actgaa------ttgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
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gtatggcatttgcctttcactgtttttggaatgcatcttagtgattctttaggttgacatacaaattttaatccatgatcaaccatagtgacttcgcattattaaaacatctttttttttttttgacagTGGGCACCATGTCATGCTGTTGTTGCAACACCGCTGCTTATTGCATTTGAACTTCTCCTTTGTATATATCTCGAAAGCATTTATGMapped 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|192295605|gb|FG988179.1|FG988179EST: CTCGAGGAAGGTTTTCATTACCTGCGCCATCTGCTCCACGTAATCGAAAT TGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAA
genomic: CTCGAGGAAGGTTTTCATTACCTGCGCCATCTGCTCCACGTAATCGAAATgtatgccatt ... attgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccctgaaaatgttttgacaagtaaatacaatactgaattgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
ttttgac putative branch site (score: 3)
cttcatt putative PPT
aagtaaatacaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttttctctttcttgtctaagtttctattggaaagtgttttttcccctgaaaatgttttgacaagtaaatacaatactgaattgcttcattgtgacagTGGGCTCCATGCCATGCCGTTGTTGCAACACCATTGCTTATTGCATTTGAATTGCTCCTTTGTATATATCTTGAGAGCTTATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgcttc