Sequence
atgc intronic sequence ATGC exonic sequence...gatcactatagccaaaattacttttaaaacctaaatctctataaaagacaatatcctcctggtttgacttctctaacccttctcttctaaataattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
Basic information
species | Glycine max |
transcript | GLYMA01G03710.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G03710.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g47262.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------------------gatcactatagccaaaattacttttaaaacctaaat------ctctata-----aaagacaatatcctcctggtttgacttctctaacccttctcttctaaataatttt----agACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
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gtaacactcgcaaccattatttacccttttgtcttgatatccttggaactttcatattatcaaatccaacttaaaatggaacccatgcatgaccttcttgatatgttcatatataatggttattttagttagcagctcacagattgatttttttcattatcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG
upper sequence: GLYMA01G03710.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G10600.3 (Arabidopsis thaliana), 3'ss of exon 4
gatcactatagccaaaattacttttaaaacc-taaatctctataaaagacaatatcctcctggt-ttgactt-ctctaacccttctcttctaaataattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
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-----gtatatctc---tctcttctagctccctccatgtttagtgatctgtttatctactttgtcttgacttactataacgaggttatgcatatt--ttccagACTCATCCTTCTCAGGGTTGTTTCATGTCATCTGTAGATCTGCATACACATTATTCGTATCAG
upper sequence: GLYMA01G03710.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0127g00710.t01 (Vitis vinifera), 3'ss of exon 6
--gatcactatagccaaaattacttttaaaacctaaatctctataaaagacaatatcctcctggtttgacttctctaacccttctcttctaaat--aattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
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ggaagcatttcttctttgttcataaagattatctggtctggtcttgatga-aatttttagtaggtct---ttgtttgactcttcactcctatatctattttcagACACATCCTTCTCAGAGTTGTTTCATGTCATCAATAGATTTGCACACGCAATACTCATATCAGMapped 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|120532496|gb|EH260629.1|EH260629EST: TTTTTAAAATTCTAAATGAAAGATCCCTTTATCCTGTGGGATGGATCCAT ACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAA
genomic: TTTTTAAAATTCTAAATGAAAGATCCCTTTATCCTGTGGGATGGATCCATgtatgtcttc ... ataattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacaatatcctcctggtttgacttctctaacccttctcttctaaataattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
ttctaaa putative branch site (score: 2)
tcttctaaataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcactatagccaaaattacttttaaaacctaaatctctataaaagacaatatcctcctggtttgacttctctaacccttctcttctaaataattttagACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA