Sequence
atgc intronic sequence ATGC exonic sequencegtggtgttttgccttgttttacccatctcatattctgtttgatgagttccagtactgcttgattgcattgacctttacatttatagtactttggctcagtgatgatggtttttcctttttgggtgggggtggggtacagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
Basic information
species | Glycine max |
transcript | GLYMA12G01290.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G18830.1 (Arabidopsis thaliana), 3'ss of exon 8
gtggtgttttgccttgttttacccatctcatattctgtttgatgagttccagtactgcttgattgcattgacctttacattta-tagtactttggctcagtgatgatggtttttcctttttgggtgggggtggggtacagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
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---------------------gtgaagagacaatagatttgatatagccttgt--tgttagcttgcatatgcttgtcagttaactagtactttatctaaat--taatggaatttttggtccaattatgt--------cagATTGTGGCTGAGTTACCTACTGGTCAAAACTGGAATTTTGATGTTCATTGGTATCCAAAGATGCCTGGAGTTATATCAGCATCTTCAGTTGATGGGAAAA
upper sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G63460.2 (Arabidopsis thaliana), 3'ss of exon 8
gtggtgttttgccttgttttacccatctcatattctgtttgatgagttccagtactgcttgattgcattgacctttacatttatagtactttggctcagtgatgatggtttttcctttttgggtgggggtggggta-------cagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
||| || || | | |||| | | | | | | | | | |||||| ||||| || | || | ||||||| ||| || || ||||| | |||||||||||||||||| |||||||| || | |||||||||||| |||||||||||||| |||||||| ||||
------------------------------------------------gtagtgtgaaggaat--caataaaagatacagatttgctgggtccgtgaattagttaactattttccattttgactgagtttgatccaaccataacagATTGTGGCTGAGTTACCTGCTGGCAACAATTGGAATTTTGATGTTCATTGGTACCCAAAGATACCTGGAGTTATATCAGCATCTTCATTTGATGGGAAAA
upper sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 8
gt-ggtgttttgccttgttttacccatctcatattctgtttgatgagttccagtactgcttgattgcattgacctttacatttatagtactttggctcagtgatgatggtttttcctttttgggtgggggtggggtacagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
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gtaggtgaaatgcca-atttcagccttctttccgattgtt--gtgtatttctgttttgaacatttcctattttgagcaaattattttggcttttgttctgctatgatgatggtactatttc--tttcaattcttttgcagATTGTCTGTGAATTGCCAGCTGGTACCAACTGGAATTTTGATATACACTGGTACCCCAAGATACCTGGAGTCATATCAGCGTCTTCATTTGATGGCAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtactttggctcagtgatgatggtttttcctttttgggtgggggtggggtacagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
ttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgttttgccttgttttacccatctcatattctgtttgatgagttccagtactgcttgattgcattgacctttacatttatagtactttggctcagtgatgatggtttttcctttttgggtgggggtggggtacagATTGCCTATGAATTGCCAGCTGGGACCAATTGGAATTTTGATGTGCATTGGTATCCCAGGATACCTGGAGTAATATCAGCATCTTCCTTTGATGGAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA