Sequence
atgc intronic sequence ATGC exonic sequence...ctcttattaatcataattttattgcttctagtaatcatggtgctataaattcttttacataaacacttatgatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
Basic information
species | Glycine max |
transcript | GLYMA15G42140.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0127g00260.t01 (Vitis vinifera), 3'ss of exon 9
ctcttattaatcataattttattgcttctagtaatcatggtgctataaattcttttacataaacac-ttatgatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
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acatttttgagattccccaaaaaggatcacatg-tcttttcagtgggtatcctcattcatgaggatgttattaaactttacaagttgtcatattcttgcagACAAGTGCCTCTTTGAAGTTCACAGTTCTGAACCCCAAGGGACGGATTTGGACTATGGTAGCAGGAGGAGGTGCAAGTGTCATCTATGCAGATACG
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S63_54V6.2 (Physcomitrella patens), 3'ss of exon 9
-------------------ctcttattaatcataattttattgcttctagt---aatcatggtgctataaattct--tttacataaacacttat-----gatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
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gtgtgattgattcatttatctaatacaagacactaccaaatt-cttccactccagactttaaccatcgcaattccacttcacgtgatcatttctatacagggtcttaagtagtgtttatgtggctgcagACCGGTGCTTCTCTGAAATTGACGATACTGAATCCGAAGGGCCGCATTTGGACAATGGTTGCTGGAGGTGGTGCCAGTGTCATTTACGCTGATACT
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 7
lower sequence: PP1S7_156V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------ctcttat-taatcataattttattgcttctagtaatcatggtgctataaattcttttacataaacacttatgatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
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gtatgcggcactgctctgatagtttgaggcgggctctctggtactaccaaaaccatgccgcatgta-cgagctccctgtt-cgtttgtttccagtttagggcttttaattgacata-gctacatgtttgattgcagACCGGTGCCTCCTTGAAATTGACAATCTTGAACCCTGAAGGCCGAATCTGGACCATGGTCGCTGGGGGAGGTGCAAGTGTTATCTACTCTGATACGMapped 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|6963952|gb|AW432645.1|AW432645EST: GAAGGGTTATGAGTACTACAGAGGCTNTCATTCATGGATTAGATGANAAG ACAAGTGCATCTTTTGAAATT-ACAGTATTAGACACAATGGGCCCGA-TNT
genomic: GAAGGGTTATGAGTACTACAGAGGCTTTCATTCATGGATTAGATGAAAAGgtgaaaaaaa ... ctgttcccagACAAGTGCATCTTT-GAAATTCACAGTATTAAACCCAATGGGCC-GAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaattcttttacataaacacttatgatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
tttgttttctgttccc CT-rich tract
ttttacataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttattaatcataattttattgcttctagtaatcatggtgctataaattcttttacataaacacttatgatgtttgtttgtttgttttctgttcccagACAAGTGCATCTTTGAAATTCACAGTATTAAACCCAATGGGCCGAATTTGGACAATGGTTGCTGGGGGAGGTGCTAGTGTTATCTATGCTGATACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - -tggtgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt