Sequence
atgc intronic sequence ATGC exonic sequencegtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
Basic information
species | Glycine max |
transcript | GLYMA10G03660.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G019361_T03 (Zea mays), 3'ss of exon 10
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattat-cagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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-------------------------------------------------------------------------------------gtgtagtttgtgtatgaaattgaaatctagtaatatacacttttgaaccaaaagttgttagttc--taagctctgttacaaattctttctgtatttttagGTCAATCAAATACGAGATTCGTTGGCAGTTATGGGGAACAACAGCACTGCTTTTAGCTTGCCTCAG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G321413_T01 (Zea mays), 3'ss of exon 4
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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----------------------------------------------------------------------------gtgtagtttgtgtatgaaatctagtaatatacacttttgaaccaaaagttgt-tagttctaagctc-agttacaaattctttctg--------------tatttttagGTCAATCAAATACGAGATTCGTTGGCAGTTATGGGGAACAACAGCACTGCTTTTAGCTTGCCTCAG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G305254_T04 (Zea mays), 3'ss of exon 10
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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----------------------------------------------------------------------------gtacagtttgtgtatgaaatatagtactatacaatttttaaccaaaaaatgatagctacaagctcagttacaaattttctttctat------------gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G030138_T01 (Zea mays), 3'ss of exon 11
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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------------------------------------------------------------------------------------gtaatgttttttcagcccatat---attatcaacttgaagttatgatatgcagttctt--attgaagaaa----ataacgttagtg-----ttacatcagCTCAACCAAATCAGAGACTCTTTGGCGGTTATGGGAGATAACAGTACAGCTTTTAGCTTACCACAG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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--------------------------------------------------------------------------------------------------------gtatgttctcttgtgttctgcatcgtacaggtaatcatcattattatctcagaaatcattcttgttgtctcctttttcagGTTAACCAGATTCGGGACTCCTTGGCTATAATGGGTGACAACAGCACAGCCTTTAGCTTACCGCAG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 10
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
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----------------------------------------------------gttagttttctcctacttacaaccatgttcttgtagtatctttactgc---------atttccag-----aacaaagttttgatagtg-aatgctaattgtgacttcagGGGACAAAAAC---ATTGAGCAGGTTAACCAGATTCGGGACTCTTTGGCTATTATGGGTGATAATAGTACAGCCTTTAGCTTACCACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
cactaaa putative branch site (score: 2)
cttcgtc putative PPT
aattgaatatgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT