Sequence
atgc intronic sequence ATGC exonic sequencegcttgtcttgaggggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTGAGCGAGATCTGCATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G01060.1 (Glycine max), 3'ss of exon 5
----------gcttgtcttgaggggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTGAGCGAGATCTGCATTA----
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gtgtcgaagatcttgtcataaggggtttcaattactgtatcattgatgaggttgattcaatccttattgatgaagctagAACACCGCTTATTATATCTGGACCTGCAGAGAAACCCAGTGATCAATATTATAAGGCTGCAAAGATTGCAGAAGCCTTTGAACAAGACATACATTACACT
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 5
---------------------gcttgtcttgagg----ggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTG-------AGCGAGATCTGCATTA----------
|||| || | | ||| | | | || || || | || |||| ||| | | | | | | || || | || || | || | |||| || || | ||| | | || ||| ||| | | |
gtaatttttcctttacatatttcttgcatttaaaatatgctttttagatttttagtttttatccttttaatatcatgctgaactctgaactgtggaatgtacagAGTGTCGAAGATCTTGTCATAAGG---GGTTTCAATTACTGTATCATTGATGAGGTTGATTCAATCCTTATTGATGAAGCTAGAACGCCGCTTATTATATCAG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G01800.2 (Arabidopsis thaliana), 3'ss of exon 4
------------------------gcttgtctt-gaggggtttcaattactg--tgtaattgatgaggttgactcaattctgattgacgaa-gCAAGAACTCCTCTCA----TTATCTCAGGACCTGCT-----------GAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTGAGCGAGATCTGCATTA----------------------------------
| || ||| ||| | | || | |||||| || | || | | ||| || | | || | | | || | || | | | | | || || | | ||| |||| | | || || | |
gtcaccaacagtgagcttggatttgattatctgagagacaatctagccacggaaagtaattcttgctttattttctcctttcattattgattgtatgagtttattttggatgttttttctgagttagtttctgattgtacagAGTGTTGAGGAGCTCGTCTTGAGGGATTTCAATTATTGTGTGATTGATGAAGTTGATTCCATACTTATTGATGAAGCAAGGACTCCTCTCATTATCTCTG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 4
----gcttgtcttgaggggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAA---AAGCCAAGTGAT---AGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTG-------AGCGAGATCTGCATTA----------
| ||||| ||| | | | |||||| | | | || ||| || ||| ||| | | || || || ||| | || | | || || ||| | || ||| || || | |
gaaagtaattcttgctttattttc-tcctttcattattgattgtatgagtttattttggatgttttttctgagttagtttctgattgtacagAGTGTTGAGGAGCTCGTCTTGAGGGATTTCAATTATTGTGTGATTGATGAAGTTGATTCCATACTTATTGATGAAGCAAGGACTCCTCTCATTATCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTGAGCGAGATCTGCATTA
gattgac putative branch site (score: 3)
tttcaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttgtcttgaggggtttcaattactgtgtaattgatgaggttgactcaattctgattgacgaagCAAGAACTCCTCTCATTATCTCAGGACCTGCTGAAAAGCCAAGTGATAGGTACTATAAAGCTGCAAAAATTGCCTTGGCCTTTGAGCGAGATCTGCATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC