Sequence
atgc intronic sequence ATGC exonic sequence...caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG
Basic information
species | Glycine max |
transcript | GLYMA17G36950.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g49270.1 (Oryza sativa), 3'ss of exon 1
caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttg-tgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG-
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----gttgctgcccgcttcttcttcttcttcttcggttcttcccattacccccccccccctttttttttgtcccgaatctgaacgacgcgctgctgctgcagTTCTCGGTGTTCGGATCGCTGTCCAACGTCGGCGCCATGGTTGGGGCGATTGCCAGTGGTCAGATGGCCGAGTACATTGGGCGCAAAGGG
upper sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G19450.1 (Arabidopsis thaliana), 3'ss of exon 2
-caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggt-----ttcttgttttttgtgtttcacaacttca---ttgtactttgttgtgc-aGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG-
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gtatgaaggtcccatctttatttaagaactgttctgttttttttttttttttttgtaaagactcttgttctgtaattttctgacttttaggtttcttgtttgatgttttagTACTCTGTGTTTGGGTCTCTATCCAATGTGGGTGCTATGGTTGGAGCAATTGCGAGTGGTCAGATTGCTGAATACGTTGGACGGAAAGGG
upper sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G75220.1 (Arabidopsis thaliana), 3'ss of exon 2
caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG-
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--gtaatggactgatcat---tgtctagagctgt-ctggtttttatcatt---gcttgtt--tagccgtgtttgactttgatgtaccactccatgttttagTACTCTGTGTTTGGTTCTCTTTCCAATGTGGGTGCTATGGTTGGTGCAATTGCCAGTGGTCAGATTGCAGAATACATTGGACGAAAAGGG
upper sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 2
caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG-
||| | | || | ||| ||| ||||| ||| || || | | | | || || | | |||| ||| | ||||||||||| || |||||||| ||||||||||| ||||| || ||||||||| |||| || || ||||| |||||
----------------------gtgtgaatctctggcgctttaattccgtttgg------atttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG
ctttgtt CT-rich tract
ttgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
caccatt
- - - - - ccaacct
- - - - - - - - - - - - - - gtttgtg
- - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacttc