Sequence
atgc intronic sequence ATGC exonic sequencegtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
Basic information
species | Glycine max |
transcript | GLYMA11G04910.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 6
gtctcacaggctagcatttacacagtatatgc-attgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
| | | | | || | | || | ||| | || | |||| || | | || | || | | | | || | ||||| | ||||||||||||| || ||||| ||||| |||| ||||||||||| ||||||||||| |||||||| || || || ||||
---------gttcgtctgtgcagggattgcgccaccgcatctcgcttccttattattg------tgcggacaactaacgtaagtgaagagatcgtctcaatgcacacgctaactgcattgcagGCACCACCAGCAAGGAAGATGGCAGTCTCGGATTGGAAGAGTCGCTGGAAACAAGGATCTATACCTCGGCACTTTCA
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G063994_T01 (Zea mays), 3'ss of exon 3
gtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA----------
|| ||| | | | | | | | ||| ||| || | | ||| ||| | | | ||||| | ||||||||||||| || ||||| ||||| |||| |||||||| || ||||||||||| |||||||| || | || || |
---------------------------------------gttcgtttgcccagactactatgcc-accgcattttgcttccttagaga-tcgtctcaat-gtacacgctaactgcattgcagGCACCACCAGCAAGGAAGATGGCAGTCTCGGATTGGAAGGGTCGCTGGAAACAAGGATCTATACCTCGACACTTTTAGTAAGAAAGA
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 3'ss of exon 6
gtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaa---cttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
| ||||| ||| || | || | ||| | | | ||| | ||| | | | | ||| | | || | | || ||| || || ||||| || |||||||||||||| || ||||| ||||| ||||||||||||||||| || |||||||| ||
----------------------------------gtccttttaaattac--atttatataactttatataa---tacatagtttaataatgtgaatattgactttgtgtgagttttttgtactagACATCACCAGCATGGAAGGTGGCAAGCACGGATTGGTAGAGTCGCTGGAAACAAAGATCTCTACCTTGGAACTTTTG
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 6
gtctcacaggctagcatttacacagtatatgcattgcaatttaatt-taacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
|||| || || |||| | | |||| | | ||||| || || | | | ||||| | | | | | | ||| || || |||||| || |||||||| ||| ||||||||||||||||||| ||||| || || ||||| || || |||||||| || ||||
gtcttac----tattattttct--gcttatgtctcatcttgtaattgtattgtcatgttctctgagagaaaaggcgaaaaaaaatcc--cctgaaatctctttcctgcttcgattcttagcagACATCACCAACATGGACGGTGGCAAGCTCGAATTGGCAGAGTTGCAGGGAACAAGGACCTTTATCTTGGGACATTCA
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ26861 (Selaginella moellendorffii), 3'ss of exon 6
gtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
| || || | |||| | | | | | |||| | |||| ||||| ||||| ||| | |||||||| || ||||||||||| || || ||||||||||| || || ||||| ||||
--------------------------------------------------------------gtaagcgtgccgtaaatccttctcctttgcgattcctaacaagctttaaatca--tgcagACACCATCAACAAGGACGCTGGCAAGCCCGGATTGGAAGAGTAGCCGGCAACAAAGATCTTTACCTCGGAACTTTCA
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ21317 (Selaginella moellendorffii), 3'ss of exon 6
gtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
| || | | ||||| | | | | |||| | |||| ||||| ||||| ||| | |||||||| || ||||||||||| || || ||||||||||| || || ||||| ||||
--------------------------------------------------------------gtaagcgtggcgtgaatccttctacttcgcgattcctaacaagctttaaatca--tgcagACACCATCAACAAGGACGCTGGCAAGCCCGGATTGGAAGAGTAGCCGGCAACAAAGATCTTTACCTCGGAACTTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
gattaac putative branch site (score: 2)
aatttacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctcacaggctagcatttacacagtatatgcattgcaatttaatttaacaatatttacaccttgagaagaatttactttgttctaaactcggttcattcattctgattaacttggtagCAGGCACCACCAACACGGAAGGTGGCAAGCTCGAATTGGAAGAGTGGCTGGAAACAAAGATCTATATCTTGGAACCTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA