Sequence
atgc intronic sequence ATGC exonic sequencegtgtgaataccttaacatcttttctgtgttctggaatatataatttcaaattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
Basic information
species | Glycine max |
transcript | GLYMA11G07870.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G07870.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g02170.1 (Oryza sativa), 3'ss of exon 4
--gtgtgaataccttaacatcttttctgtgttctggaatatataatttcaaattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
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gtatgaaaaaacttcagaaattctgctggacgctg-aacatctgaactagtttctgtcgctcatattactctaaacggttgatattctcttccaac--ttgacagGTTTAGCTGCTCCAGCAATTGCTGCAGGGTTTGGTGCTCTTGCTCCAACCCTGGGCACACTTGTCCCTGTTATAGGAGCTAGCGGATTTGCTGCTATGGC
upper sequence: GLYMA11G07870.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G092776_T04 (Zea mays), 3'ss of exon 6
gtgtgaataccttaacatcttttctgtgttctggaatatataatttcaaattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC-----------------------------------------------------
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-------------------------------------------------------------------gtgattcatatgctctaattctcttcgacccgacaggtttagctgcaccagccattgctgcaggatttggtgctctagctccaacactgggcacacttgtccctttcatagGGGCTAGTGGATTTGCTGCTATGGCTGCTGCGGCAGGATCTGTTGCTGGCTCTGTGGCAGTTGCTGCCTCATTTGGAG
upper sequence: GLYMA11G07870.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
----gtgtgaataccttaacatcttttctgtgttctg--gaatatataatttcaaattggatgagtttc-cttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
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gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
upper sequence: GLYMA11G07870.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G18100.1 (Arabidopsis thaliana), 3'ss of exon 4
-------gtgtgaatacc-ttaacatcttttctgtgttctggaatat--ataatttcaaattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
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gtatgatgtcttctaactgttaatatctcttccaacgtttagaaaattaagagtatgtgtttggaaaatgctaattcttaatctgttttgattacatattatgtg--aaacagGATTGGCTGCTCCAGCAATAGCTGCAGGGTTCGGTGCATTGGCTCCAACTCTAGGCACAATAGTTCCGGTAATTGGAGCCAGTGGGTTTGCTGCAGCTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
atttgattgtttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgaataccttaacatcttttctgtgttctggaatatataatttcaaattggatgagtttccttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC