Sequence
atgc intronic sequence ATGC exonic sequencegtgagatacacgttgataattaatgatgtgatttgtgcagtagaagagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
Basic information
species | Glycine max |
transcript | GLYMA18G02760.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G71280.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagatacacgttgataattaatgatgtgatttgtgcagtagaa-gagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
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---------------gtaagttttgtcacaacgtacttatcaaattaagcatccttttacagatagtctaac-tagtatctcttctgcagATTCTTCATGACATGTGCTTGTGTTGATTACTGGGGACTCGTAATTTCAAAAATTCCTAGCCTCAAGTCCATTTCCTTCTTTCCCACCCATGGGAAGATG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G71370.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagatacacgttgataattaatgatgtgatttgtgcagtagaa-gagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
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---------------gtaagttttgtcacaacgtacttatcaaattaagcatccttttacagatagtctaac-tagtatctcttctgcagATTCTTCATGACATGTGCTTGTGTTGATTACTGGGGACTCGTACTTTCAAAAATTCCTACCCTCAAGTCCATTTCCTTCTTTTCCACCCATGGGAAGATG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 4
gtgagatacacgttgataatt--------aatgat----gtgatttg--tgcagtagaagagtattttatcat----acccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
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gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ12594 (Selaginella moellendorffii), 3'ss of exon 3
gtgagatacacgttgataattaatgatgt-gatttgtgcagtagaagagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
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------------------gtaagtgatacaggtttatgcttctt----gtatttattctttccga-----ctgttttgtcttttg-atagATATTTCATGACCTGTGCTTCTGTCGATTACTGGGGCACTGTCCTTCCTCGGCTCAAGACTCTCAAGGATGTACCGATAGTTGTACTGCATGGGAAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgcagtagaagagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
ctctaat putative branch site (score: 3)
agtattttatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatacacgttgataattaatgatgtgatttgtgcagtagaagagtattttatcatacccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG