Sequence
atgc intronic sequence ATGC exonic sequencegttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
Basic information
species | Glycine max |
transcript | GLYMA14G22250.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G123305_T01 (Zea mays), 3'ss of exon 4
gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
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-------------------------------------------------ctagtttttccttataaacaacttgagacgttctggttcctgaataagttttcagaagagctttgtattttgatctttt------ctggatgttgaacttt------tgcagGATATCTATTGTTTGAATGCTGATGGGTCTCTGTTTGATGCTGCACTTATTTCAGCAGTGGCTGCCTTTACACATT
upper sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G886044_T02 (Zea mays), 3'ss of exon 3
gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgt-tattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
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-------------------------------------------------ctaatttttctttataaacaagttgagatgttctggatcctgaataagttttca-taagagctttgtattttgatctttt------ctgggttttgaacttt------tgcagGATATCTATTGCTTGAATGCTGATGGGTCTCTGTTTGATGCTGCACTTATTTCAGCAGTGGCTGCCTTCACACATT
upper sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G60080.1 (Arabidopsis thaliana), 3'ss of exon 6
gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctat-tgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
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---------------gtgagtactcgttgg---tcttatatcggtgcttgtccgtcagt-tgattcacatctattcttctagggatctttctctttgat--atttaactgagttctctagcatatatatgaacattgt--tgctctctgaaatttctcatagGACATATATTGCCTGGATGCTGATGGTGCTCTCTTTGATGCTGCTCTGCTTGCTGCTGTCGCAGCCTTCTCCAATC
upper sequence: GLYMA14G22250.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g08550.t01 (Vitis vinifera), 3'ss of exon 6
gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
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------------------------------------------------------------tagt-tggtgctctcagtgagtgactttagccaagtgtgaacatcgtgcatttttttgtttctgtattgaatgacaaagaaatacatttggtatctggcagGACATATACTGTTTGGATGCAGATGGTTCTCTGTTTGATGCTGCTTTACTTGCAGCAGTGGCTGCCTTCTCTCACTMapped 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|17024016|gb|BM095050.1|BM095050EST: TGAAAGAATTGTCCTTGGTTGGTGGAAAAGCTGCATGGATGGCTTACCTG AATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGT
genomic: TGAAAGAATTGTCCTTGGTTGGTGGAAAAGCTGCATGGATGGCTTACCTGgttagctttt ... tgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGT
EST:
gi|51341392|gb|CO982709.1|CO982709EST: TNCAAGAATTGTCCTTGGTTGGTGGAAAAGCTGCATGGATGGCTTACCTG AATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGT
genomic: TGAAAGAATTGTCCTTGGTTGGTGGAAAAGCTGCATGGATGGCTTACCTGgttagctttt ... tgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
tattaat putative branch site (score: 2)
ttgttattaatctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcttttatatggacggcatttaccaaatttcacatatcagctatagaaagagtgcatagcacacctcattcggtgtgaggcactctgtctttgtttgctctgatggtgttgttattaatctattgaacgacagAATGCTGCCTTCTCTATCATGCAGGATATCTATTGTTTGGATGCTGATGGTGCTCTTTTTGATGCTGCATTAATTTCTGCAGTTGCTGCCTTATCTCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC