Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaaatggggttcatttgttgctcttaatattagtgatggcgtggcattttcttcaatcattaatggtcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
Basic information
species | Glycine max |
transcript | GLYMA02G47270.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G47270.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G55810.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgtaaatggggttcatttgttgctcttaatattagtgatggcgtggcattttcttcaatcattaatgg-tcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
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---------------------gtgggtgcaagatttgatttctgttcgttttatttcaccatgtttgctgactctaacaatgagctctcg-ccagGTCGTTGAACATGGCCTCGGACACCTTCCCTTTACAGAAAAGCAAGTGGTTACTCCAACAG
upper sequence: GLYMA02G47270.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatg-taaatggggttcatttgttgctcttaatattagtgatggcgtggcatttt-cttcaatcattaatggtcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
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gtaggattattaaagctcatttaaatggctgacca--aattctcctatcacgtctcatttctgttgtctgagttt---ttttcttatatttatcagGTTGTAGAACATGGTCTTGGACATCTGCCTTTTACTGAAAAGCAAGTGATTACTCCAACCG
upper sequence: GLYMA02G47270.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 3'ss of exon 9
--------------gtatgtaaatggggttcatttgttg-ctcttaatattagtgatggcgtggcattttcttcaatcattaatg-gtcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
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gtgggtattatttcctagagccacttggttcatttgataacttcttgacttggtagtgg-gtttcttttatttggttgattcatttatctagtcccttgtatctttacagGTTGTTGAACATGGCCTAGGTCATCTTCCATTCACAGAAAAGCAGGTGATCACTCCAACTGMapped 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|298180251|gb|HO025466.1|HO025466EST: AAACAACGAAACATGACTTTGTATTTTATTCTGACCGTTTGATTCGTTTG GTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACC
genomic: AAACAACGAAACATGACTTTGTATTTTATTCTGACCGTTTGATTCGTTTGgtatgtaaat ... acttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatggcgtggcattttcttcaatcattaatggtcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
cgctcac putative branch site (score: 3)
ctcactt CT-rich tract
aatcattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaaatggggttcatttgttgctcttaatattagtgatggcgtggcattttcttcaatcattaatggtcaaatttcgctcacttgaccagGTTGTAGAACATGGCCTAGGGCATCTTCCATTTACAGAAAAGCAAGTAACCACTCCAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG