Sequence
atgc intronic sequence ATGC exonic sequence...gttgtgagagcgcctttaacagtattatgtccctctacttttggttcctggtttttgaaaattaatttttgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G151905_T03 (Zea mays), 3'ss of exon 8
gttgtgagagcgcctttaacagtattatgtccctct-acttttggttcctggtttttgaaaattaattt---ttgctagggc----aatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
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-------ctacagttctaaca-catgatttcccccccattcgtagtttatttttgtttaggatttttctggccttcaagtaccttagaagtttgcaattattttgtagGTACTTCATTTTCACAGCAAAGGATTTGGAAGAGTGGTCAGAGAATCCTGAGTCCTTCCACCATGAGCAGAATTTGGTTCAGTGGACCGAGAAAAAACGG
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G18530.1 (Glycine max), 3'ss of exon 7
gttgtgagagcgcctttaacagtattatgtccctctacttt-tggt-tcctggtttttgaaaattaatttt--tgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
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-ttattcaacta--tatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgccttt-atctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 8
gttgtgagagcgcctttaacagtattatgtccctctacttt-tggt-tcctggtttttgaaaattaatttt--tgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
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-ttattcaacta--tatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgtcttt-atctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 7
gttgtgagagcgcctttaacagtattatgtccctctacttttggt----tcctggtttttgaaaattaatttt--tgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
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-ttattcaa----ctatatgattgtaatttgctttgagatttagtgatatttctccttatgattatgcactctattaccagactaatgccttt-atctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCCGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 8
--------gttgtgagagcgcctttaacagtattatg-tccctctacttttggttcctggtttttgaaaattaatttttgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
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gttcatttattgtgttgtgaactgtgatggtgtcatggtcgttgtatgaatgatgcctgg--------aagaaaagtttactgaaatta-accatcgacattccaacagGTATTTTGTACTAACAGCAAGTGACCTAGAGGAGTGGTACCAGAACCCTGAGTCCTTTCATCATGAGCAGGACATGATTCAGTGGACAGAGAAATTGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctggtttttgaaaattaatttttgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
tattgat putative branch site (score: 3)
tttttgaaaattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtgagagcgcctttaacagtattatgtccctctacttttggttcctggtttttgaaaattaatttttgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - ccctcta
- - - - - - - - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - ttcctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgct