Sequence
atgc intronic sequence ATGC exonic sequencegtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
Basic information
species | Glycine max |
transcript | GLYMA16G25750.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
gtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
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gtcagttgttcgatatagcatttctgttaataggaaaataaatttaagaat--ctgattcgaaaaccagatgttgttc-tgtttttggctcatgg---tttc----------agCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
upper sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 11
---------------------------gtcagttatatcagctagcaaaacatt-tcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
|| ||| || ||| || || | | ||| | ||||| | | | || | ||| |||||| | | || ||| ||| | |||| | ||||| | ||| | | |||||| | |||||||||||| | || || ||||||||||| || ||||| |||||||||||||| | || ||||| ||||| |
gttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacag-attaacaactacagatttctatttttcgttttgtat-----ttctttatagaaaatctgccaacccatgcagGTAAGGGACATTAGGTATCTATCACTTGATGATGGTAGGAAACTATGTCTGGAGTGCCTGGACTCTGCTATCATGGATACACTAGAGTGCCAGCCTCTTT
upper sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 8
---------------------------gtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
|| | | || | ||| | | | | | ||| || || ||||| | || || ||| || || |||| | | || || ||| | |||| | ||||| || ||| || | ||||| | |||||||||||| | || || |||||||||||||| ||||| ||||||||||| ||| || ||||| ||||| |
gttagttggaagaagatacaaccccccatcccacaca-cactgaagaaatcttcttgtagcttgatgata--aacaacagatctctaattt-----ttcttttttggtatttctttatggaaaatctgccaacccatgcagGCAAGGGACACTAGATATCTATCACTTGATGATGGTAGGAAACTATGTCTGGAGTGTCTGGACTCTGCTATCATGGAAACTGTAGAGTGCCAGCCTCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
tttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA