Sequence
atgc intronic sequence ATGC exonic sequencegttgcatattagttccaaattataatttgagatggaaagcaacatgcatttaccttgaagatgagggaggccacttaatcttttgatgattatgatgcctcagtcgttattcatatactcatgacatattttgccatgatgcaatttccagagttatatgcatagtaaaacacttgaatgattgttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
Basic information
species | Glycine max |
transcript | GLYMA07G39690.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0508g00020.t01 (Vitis vinifera), 3'ss of exon 5
gttgcatattagttccaaattataatttgagatggaaagcaacatgcatttaccttgaagatgagggaggccacttaatcttttgatgattatgatgcctcagtcgttattcatatactcatgacatattttgccatgatgcaatttccagagttatatgcatagtaaaacacttg---aatgattgtt---ttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
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--------------------------------------------------------------------------------------------------ctca-tagttatgcacatgcatgcatgcaatgttaggaaggatggatatgcattattcatttcatattgaatgatttatttggtgaatgttcattcaatagGCCAGACGAGGTTTACCATGTATCTGTGATGCCCTGTTATGATAAGAAGCTTGAGGCTGCAAGGGATGACTTTGTGTTTGAAGTGGATTCTCCAGGTGGA
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ34840 (Selaginella moellendorffii), 3'ss of exon 5
gttgcatattagttccaaattataatttgagatggaaagcaacatgcatttaccttgaagatgagggaggccacttaatcttttgatgattatgatgcctcagtcgttattcatatactcatgacatattttgccatgatgcaatttccagagttatatgcatagtaaaacacttgaatgattgttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
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-------------------------------------------------------------------------------------------------------------------------gttcgtggttttcgagaccggagatctcgtaatcttacttttggtt-----ttcttttcgttgttct---agACCGGAGGATGTATATCATGTTACAGTGATGCCTTGTTATGACAAGAAGCTGGAAGCTTCTCGGGACGACTTTATATTCGCTGTAGAGAACGGGGCCTCT
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ06869 (Selaginella moellendorffii), 3'ss of exon 5
gttgcatattagttccaaattataatttgagatggaaagcaacatgcatttaccttgaagatgagggaggccacttaatcttttgatgattatgatgcctcagtcgttattcatatactcatgacatattttgccatgatgcaatttccagagttatatgcatagtaaaacacttgaatgattgttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
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--------------------------------------------------------------------------------------------------------------------gttcgtggc-----tttcgagaccggagatctcgtaatcttacttttggtt-----ttcttttcgttgttct---agACCGGAGGATGTATATCATGTTACAGTGATGCCTTGTTATGACAAGAAGCTGGAAGCTTCTCGGGACGACTTTATATTCGCTCTAGAGAACGGGGCCTCTMapped 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|193365587|gb|FK331898.1|FK331898EST: ACAATTGGAGTTATCATAAAGAACTATGTGTGCCAAGAATTAGGACTCAG GCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTA
genomic: ACAGTTGGAGCTATCATAAAGAACTATGTGTGCCAAGAATTAGGACTCAGgttgcatatt ... gttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcaatttccagagttatatgcatagtaaaacacttgaatgattgttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
ttgtttt CT-rich tract
atagtaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgcatattagttccaaattataatttgagatggaaagcaacatgcatttaccttgaagatgagggaggccacttaatcttttgatgattatgatgcctcagtcgttattcatatactcatgacatattttgccatgatgcaatttccagagttatatgcatagtaaaacacttgaatgattgttttagcagGCCAGAAGAAGTTTACCATGTCACCGTGATGCCTTGTTATGACAAAAAGCTTGAGGCTGCTAGGGATGACTTTGTTTTCCAATTTGAGTCCCATGTTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT