Sequence
atgc intronic sequence ATGC exonic sequencegtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
Basic information
species | Glycine max |
transcript | GLYMA06G23920.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 13
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatt-----tgc-ttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
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------------------------------------------gtaccaaa-tacttataaaccaagc--agttaatacttagcttgtctacacaaatgtagtgtaatgcagtaagcagacttgcagcattgctaatgccttgcatttcggagttgtgat-acagATGGGAGGAAGAAACACCGTGCTGCTGGATGCAATAAGTTGGAGGATTCCTTTGGTCAGTGACATACCAACTATTATATTTGGTGCAGATGTCACGCATC
upper sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
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--------------------------------------------------gtacttac-caccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattgac----taatggtaccaataaa------attc----agATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
upper sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 12
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
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--------------------------------------------------gtacttac-caccttggttatacatcaaatacagttcagaacagcaactttataagagaaatggct----cgatattgactaatgataccatcaaatt-------cagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGCATTCCTTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACACC
upper sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 13
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgct-acactgaaatattgttttcattctcttaactcattcttttatttgtaa--ttattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
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--------------------------------------------------gtctgtccagactgaaacttctgtggcgattctactacttaaaaatagattgcttattgcaaagttaatgtttcctctaagcttggtttcgggatttttctttttccccagATGGGTGGAAGAAATACTGTGCTTTTAGATGCTTTGAGTTCAGGAATTCCTTTGGTTAGTGACATTCCAACAATCATATTTGGAGCCGATGTAACTCATCMapped 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|208267157|gb|GE064680.1|GE064680EST: AGATCAATAGACAGTACCTGGCTAACGTGGCACTAAAAATCAATGTCAAG ATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCA
genomic: AGATCAATAGACAGTACCTGGCTAACGTGGCACTAAAAATCAATGTCAAGgtctgttatt ... attcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
tttattctt CT-rich tract
taattattattttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT