Sequence
atgc intronic sequence ATGC exonic sequencegtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
Basic information
species | Glycine max |
transcript | GLYMA19G05020.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G05020.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g02050.1 (Oryza sativa), 3'ss of exon 2
gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
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---------------------------------------------------------------------------------------------------------------gtaatcatttgtttatgcagttatttgctagttcaaactgtgcaaat-tactaaattgatcatatggc---agGTTTTAGAAGATGGTGTCCTTGATCCTGAGACTACTATAGTGTCTATTTTCCCCTCCCCGATGCATTATGCTGGTCCAACAGAAGTGCAATGGCATGCAA
upper sequence: GLYMA19G05020.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G158147_T01 (Zea mays), 3'ss of exon 2
gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatca-ctcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
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-----------------------------------------------------------------------------------------gt-atacatttgtcgtcttaatcttagctgtttaccggatgt---attatgcaaattgctgaagtttatcatgca------------------cagGTTTTAGAAGATGGAGTGCTTGATCCTGAGACTACTATAGTGTCTATATTTCCCTCACCAATGCATTATGCTGGTCCAACAGAAGTGCAGTGGCATGCAA
upper sequence: GLYMA19G05020.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G19920.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattct-accaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
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---------------------------------------------------------------------------------------------gtgcatatttgctgttgtttccgagttcgttttcctcataaa-gaatttgttgtaaagagagattatgatttgatttgcttatgatgtgtagGTTCTAGAAGATGGAGTTCTTGACCCGAAGACTACTATTGTCTCGATCTTTCCGTCACCGATGCACTATGCTGGTCCAACTGAAGTTCAATGGCACGCCA
upper sequence: GLYMA19G05020.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 2
gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
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---------------------------------------------------------------------------ttttatttt---agtcttttgacaagtttatgaaacttaaaaatttaattgtcatgtg-ttgtccaa--agttcaattttcttattcaaa---ttttatttttggacagGTCCTAGAAGATGGAGTCCTTGATCCTGAAACTACCATTGTGGCTATATTCCCATCACCTATGCATTATGCAGGCCCAACTGAAGTACAATGGCATGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
ttctttgcttcttctt CT-rich tract
aattttattcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcccattgttcttctcaaaaaacaaagactaatcataatgtgcatgtgctacaacaatagatgttaaaaaaatgaccttgaaaagtgattgaactatcactcaaatttagcaatctactcattttgtaattgcacaatccatggaattttattctaccaagttctttgcttcttcttagGTCCTAGAAGATGGAGTTCTTGATCCTGAGACTACCATCGTTGCCATATTTCCATCACCTATGCATTATGTTGGTCCAACTGAAGTACAGTGGCATGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG