Sequence
atgc intronic sequence ATGC exonic sequencegtatgagtctttagtttccctttctccctcactttctcttgtataagcatccactctttgatttttatatacttgtattgctactacacgtccattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
Basic information
species | Glycine max |
transcript | GLYMA14G29780.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G004040_T01 (Zea mays), 3'ss of exon 4
------gtatgagtct-ttagtttccctttctccctcactttctcttgtataagcatccactctttgatttttatatacttgtattgctactacacgtccattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
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tgaaatgaataattttcttaatatgttaattgtttgggccaaacttggtatatgtttaaa---tttgctttgtggatgctc--actgc-ataatatcttgttccagGGTGATGGGTGCTGCTGCACTTCAAAAATATATTGGGAGCTTAGGTGGAATTGGGGCATCTGGTGCTGGTTCTAGCTCATCATATTCTCCAAAAGAGATG
upper sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G156069_T01 (Zea mays), 3'ss of exon 4
gtatgagtctttagtttcc-ctttctccctcactttctcttgtata-agcatccactctttgatttttatatacttgtattgctactacacgtccattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
|| | || || || | || | || | | ||| || | |||| | | | ||| | | | | | |||| | ||||||||||||||||||||||| || ||||| ||||| ||||| ||||| | || || ||||| || || || || ||| | ||||| ||| ||
aggagaaccactatcaaagactacctggtttcgttgcaaccataaacaccatttacccaaaatgttttttcgatgctcactgc-ataatattttgttccagGGTGATGGGTGCTGCTGCACTTCAAAAGTATATTGGGAGCTTAGGTGGAATTGGGGCATCTGGTGTTGGTTCTAGCTCATCATATTCTCCAAAAGAGATG
upper sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 4
gtatgagtctttagtttccctttctccctcactttctcttgtataagcatccactctttgatttttatatac--ttgtattgcta-ctacacgtc-cattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
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aatcaagtct---attgcactgtcactcacactcatgcaggtttatgtgctccctgactgattactgtttccgtttctattattaattgaatattactttcagGGTAATGGGTGCTGCTGCACTCCAGAAGTACATAGGTAGCTTAGGTGGGATAGGTGCATCAGGTGTTGGCTCAAGCTCTTCCTATGCGCCTAAAGAGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcatccactctttgatttttatatacttgtattgctactacacgtccattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
ctttgat putative branch site (score: 5)
tccattc putative PPT
tttgatttttatatac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgagtctttagtttccctttctccctcactttctcttgtataagcatccactctttgatttttatatacttgtattgctactacacgtccattcagGTTTATGGGTGCTGCTGCACTTCAAAAATACATTGGAAGCTTGGGTGGGATTGGACCTTCAGGAGTTGGATCAAGTTCTTCCTATGCCCCAAAGGAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT