Sequence
atgc intronic sequence ATGC exonic sequencegtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggtcccacccatattgtgatataatgtaatgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
Basic information
species | Glycine max |
transcript | GLYMA07G11580.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G060886_T01 (Zea mays), 3'ss of exon 4
gtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggtcccaccca-tattgtgatataatgtaatgactaatata-atgaccttaattggtttc-tcatctcacataatctttct-gcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
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--------------------------------------gtattgaaatttgcaatgtcttggtataaaagttttgtgtttgccaactgatggccttcatctgatttatagatgtttgtatggttgattcattcaattcttttatgcattttttcttgcagAATGAAAGCATTAATGGTCACTACAAGAATGCATCCTTTATGTGTGCTGATGTGACATCCCAGGACCTAGTGCTTCAAGCTAACTCCATCGATCTGATAT
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G18000.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggtcccacccatattgtgatataatgta-atgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
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--------------------------------------------------gtttactacttt-attcaccttctgagtcgatgt-tatttcgcttcattgcacatgatt--tgtaat--cttgaactgaatgttaaatttct---tctttcttgtagAATGAAAGTATCAATGGGCATTACAAGAATGTCAAGTTTATGTGTGCTGATGTTACATCCCCTGACCTCAAGATCACTGATGGATCTCTTGACTTGATTT
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G48600.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggt--cccacccatattgtgatataatgtaatgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
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-------------------------------------------------------------gtaaaactacttaggtagctagctgttgttgtgttaaaagtttctattt--taccattgcttcttttgatttctttgatgatttt-tttctttgcagAATGAAAGTGTTAATGGGCATTACAAGAACATCAAGTTTATGTGTGCTGATGTAACATCTCCAGACTTGAAAATCAAAGATGGATCTATCGACTTGATTT
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 2
gtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggtcccacccatattgtgatataatgtaatgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
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-------------------------------------------------------------------gtaaat---ttttattctcatcctccca-aattcatagacacataaaatatatatgaatc-tcatccataccatggaaacttt--gcagAATGAGTTCCTCAATGGGCACTTCAACAATGTCACGTTCATGTGTGCTGATGTTACTTCTCCTAACCTGGATATTTCACCAGGTTCTGTGGACTTGATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
tctttctgc CT-rich tract
taatataatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataccaatttcttaccacactttgaacactaattaataattatgtttgtctattttttttataaaaaaattggtcccacccatattgtgatataatgtaatgactaatataatgaccttaattggtttctcatctcacataatctttctgcagAATGAAAGCATTAATGGACACCACAAGAATGTCAAGTTCATGTGTGCTGATGTCACTTCTCCAAACTTGCATATTTCTGAAGGATCAGTTGATCTGATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG