Sequence
atgc intronic sequence ATGC exonic sequencegttgaggaactttttgcaaacaacaaaattcaggcatacatttgttaccatagaaattgaaattggctcttttctttcttttaaagaaaaaaaaattaaaattatatttattttagcttgcccttaactggttagttgtatgatattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
Basic information
species | Glycine max |
transcript | GLYMA06G21970.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G21970.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g11470.1 (Oryza sativa), 3'ss of exon 16
gttgaggaactttttgcaaacaacaaaattcaggcatacatttgttaccatagaaattgaaattggctcttttc--tttcttttaaagaaaaaaaaattaaaattatatttattttagcttgcccttaactggttagttgtatgatattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
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gtttgtttggcgtcaagtagtgttttttttttcctgtaaacatgctattctttacatttaagtaagattattgcgatttctctt---gcaacccaagctaattacatacctgggctaatttaaacatcatttctt-gttgcttgatgtttttccagGTACTGGTATGTACTAGCACACTGGCTTGGGGTGTTAATCTTCCAGCTCACCTGGTCATAATTAAG
upper sequence: GLYMA06G21970.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv17s0000g07230.t01 (Vitis vinifera), 3'ss of exon 23
gttgaggaactttttgcaaacaacaaaattcaggcata-catttgttaccatagaaattgaaattggctcttttctttcttttaaagaaaaaaaaattaaaattatatttattttagcttgcccttaactggttagttgtatgatattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
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---------------------------gttcttccttgtcacctgtt----cagtaatttttatttggagaagacaaacctt---aaaaaatgaaggtatgttctcactcatttta--ttgactaggcattttcacctctat-atattgat--agGTCTTGGTTTGTACTAGCACACTAGCCTGGGGTGTAAACCTTCCAGCTCATCTAGTTATAATCAAG
upper sequence: GLYMA06G21970.1 (Glycine max), 3'ss of exon 18
lower sequence: PP1S84_129V6.1 (Physcomitrella patens), 3'ss of exon 38
gttgaggaactttttgcaaacaacaaaattcaggcatacatttgttaccatagaaattgaaattggctcttttctttcttttaaagaaaaaaaaattaaaattatat-ttattttagcttgcccttaactggttagttgtatga-tattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
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--------------------------------------------------------tgtagtttggtcctattcattttgttgactcaattggtcttggctgccaatattatcactgattggtacttgcttcctatttgtttctctggtggggcagATATTGGTTTGTACAAGCACACTGGCGTGGGGTGTTAATCTTCCAGCTCACCTTGTTGTCATAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatatttattttagcttgcccttaactggttagttgtatgatattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
tattgat putative branch site (score: 3)
tatttattttagctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaggaactttttgcaaacaacaaaattcaggcatacatttgttaccatagaaattgaaattggctcttttctttcttttaaagaaaaaaaaattaaaattatatttattttagcttgcccttaactggttagttgtatgatattgatgcagATATTGGTTTGTACCAGCACATTGGCTTGGGGTGTGAATCTTCCAGCTCATCTAGTGATTATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA