Sequence
atgc intronic sequence ATGC exonic sequencegtaatcatattgtatattctgttatcatgtttgtttagattacattacttggtcatcattcatcagtattatgcagaactagaaagtaatatatttgaatgcccaacataagtatatttgttaatttggttttcctcagcaggatggtcattgcacctaactttacatattgtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
Basic information
species | Glycine max |
transcript | GLYMA20G37170.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g10490.1 (Oryza sativa), 3'ss of exon 5
gtaatcatattgtatattctgttatcatgtttgtttagattacattacttggtcatcattcatcagtattatgcagaactagaaagtaatatatttgaatgcccaacataagtatatttgttaatttggttttcctcagcaggatggtcattgcacctaactttacatattgtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
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-------------------------------------------------------------------att-cataaaccttcaactttgcccatct--attttatacagta-catatttgttagatggatt-----caatatatggactaattaaaata--tttgaatcatgttt-----cagGTTTATGATAAAGCAAGAAATGCCGTTGCTCTTGCTCTAAGCCCAGTTGTTCGAGCTCTTGTTGATCCAGATGGTGCATTGCAGCAAGTACGGGATTTGG
upper sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G454952_T01 (Zea mays), 3'ss of exon 5
gtaatcatattgtatattctgttatcatgtttgtttagattacattacttggtcatcattcatcagtattatgcagaactagaaagtaatatatttgaatgcccaacataagtatatttg-ttaatttggttttcctcagcaggatggtcattgcacctaactttacatatt---gtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
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-------------------------------------------------------------------------------------gggttaaagtcg--tgtcactcatcaatatctttaattaaccccatgctatttgatgacataatttcacgtgttaatctttcatatttaaattattttgcagGTTTATGATAAAGCAAGAAATGCAGTTGCTCTTGCCCTTAGTCCAGTTGTTCGGGCTCTGGTTGATCCTGATGGTGCATTGCAGCAAGTGCGGGACTTGG
upper sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 5
gtaatcatattgtatattctgttatcatgtttgtttagattacattacttggtcatcattcatcagtattatgcagaactagaaagtaatatatttgaatgcccaacataagtatatttgttaatttggttttcctcagcaggatggtcattgcacctaactttacatattgtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
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---------------------------------------------------------actcattagtatttt--aaaaacgcagaatcaaatatt----------acatatgt---cttgctcttttggaatttg-----agtttaattatttctc------ttgcatgttgttcaagtgcagACTTATGATAAGGCAAGAAATGCTTTGGCTCTTGCCCTTAGTCCAGTTGTTCGGGCTCTTATTGATCCAGATGGAGCAATGAGGGACATACGAAATTTGGMapped 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|213611643|gb|DB969031.1|DB969031EST: GGGCACCAATACACGGGATAAGGGCGTTTTTGTCCACAAATCAGCTTAAT ACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGT
genomic: GGGCACCAATACACGGGATAAGGGCGTTTTTGTCCACAAATCAGCTTAATgtaatcatat ... ttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGT
EST:
gi|254340371|gb|GR858496.1|GR858496EST: GGCGTTTTTGTCCACAAATCAGCTTAAT ACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTC
genomic: GGCGTTTTTGTCCACAAATCAGCTTAATgtaatcatat ... ttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTC
EST:
gi|208163803|gb|GD961497.1|GD961497EST: GGGCACCAATACACGGGATAAGGGCGTTTTTGTCCACAAATCAGCTTAAT ACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTC
genomic: GGGCACCAATACACGGGATAAGGGCGTTTTTGTCCACAAATCAGCTTAATgtaatcatat ... ttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttcctcagcaggatggtcattgcacctaactttacatattgtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
acctaac putative branch site (score: 2)
tttacatattgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcatattgtatattctgttatcatgtttgtttagattacattacttggtcatcattcatcagtattatgcagaactagaaagtaatatatttgaatgcccaacataagtatatttgttaatttggttttcctcagcaggatggtcattgcacctaactttacatattgtttatgaacagACTTATGATAAGGCTAGAAATGCTGTGGCTCTTGCACTCAGTCCAGTTGTCAAAGCTCTTGTTGATCCAGATGGTGCACTGAGGGACATAAGGAATTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA