Sequence
atgc intronic sequence ATGC exonic sequencegtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgattatcattattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
Basic information
species | Glycine max |
transcript | GLYMA07G36680.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 7
gtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgat-tatcattattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
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---------------------------------------------------gtaagttgcctgggacgatggtagttctgatacatttgggctttcttctctgtcttaatgcatgaacatgtttttggttctaatattcaaactgttctctt-ttaataacagttgatttatttgtctcacagACCATATATAGGAACTACCAGAAACTCACTCTTCAGGAAAGCCCAGGAATTGTTCCTGCTGGCAGGCTTCCAAGATACAAGGAAGTGATACTTCTGAATG
upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 5
gtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgattatcattattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
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---------------------------------------------------------------------gtaggattctgta--atctctctatcattattttcctt--taactctacgaacttcaatgtaagttattggaatgtgaaattgaccatactgttaattactcccttgtttcagACAATATACAGGAACTATCAGAAGCTTACAATCCAAGAGAGTCCAGGAACAGTGCCTGCTGGACGACTTCCAAGACACAAAGAAGTTATCCTGCTGAATG
upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 6
gtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgattatcat-tattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
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---------------------------------------------------------------------------------aaatttttagtttcctttttttccaacctcgctggattatgaaatggagccttaatgaaaaaagt--tcaaactcaattttggtttacatacctttttgcagACGATATACAGGAACTATCAAAAACTCACTCTCCAGGAGAGCCCAGGTATCGTGCCAGCAGGTCGTCTTCCTAGATACAAGGAAGTGATACTCTTGAACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
ttttctttctatgctt CT-rich tract
aaaaaggtaattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatgtttacaaaaccttttggatgcacatatcctgctgagtattgatgttcatttcttctcggtcaaatgattacaaaagacatttgcattgagatgttgcaaaataagttgattatcattattttaaaagacaaaaaggtaattaaactcattgttttctttctatgcttgttgtagACAATTTATAGGAATTTTCAGAAGCTTACCCTCCAAGAGAGTCCAGGAATAGTCCCTGCGGGTCGACTTCCAAGATACAAGGAAGTGATACTATTGAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA