Sequence
atgc intronic sequence ATGC exonic sequence...tcttgtacttctttttctatcaatatatctttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 8
-----tcttgtacttctttttctatcaatatatc-tttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
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gtaggtgtagcaaattaaacaacaaagggaaacagtttgttcaattgtttttggaccttcattttggttaatgaaaagcaaatcta---caactgaactcttgcagGATAAAGACAAACCCTAAAAGTGCCATCAATGAGCATTTCTTACCACGTTTCCTGGATTTTATTGTATGGGGCCATGAGCATGAATGTCTTATTGATCCT
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G12420.1 (Glycine max), 3'ss of exon 3
-----tcttgtacttcttt-ttctatcaatatatctttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
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tttgactttgaaattattgatcctacaaatggtgtactgtacc----tcagttttagattttaatctcatg--atgattggtcttgttttcaacaatggtatgtagGGTTAAAATAAATCCAAAAAATGCGATAAATGAGCACTTCTTGCCATGCTTCCTAGACTTCATTGTGTGGGGCCATGAGCATGAATGTTTGGTTGACCCG
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 8
tcttgtacttctttttctatcaatatatctttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
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---gttgattccattgctat-aacatcttttag-atcgttttcttactcattct------gtatcagaaaatttgatactgtattcat-atgacttgcagGGTGAAATCAAACCCCAAAAATGCAATAAGTGAGCACTTTCTTCCACGTTTCCTCGACTTCATTGTGTGGGGCCATGAGCATGAATGCCTAATCGACCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
acttaac putative branch site (score: 3)
cttctttcat CT-rich tract
aaaaaaaaaggtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgtacttctttttctatcaatatatctttgtgtcgttttcaatcaaaaaaaaaaaaggtatgcgataatcaaacttaacttctttcatggtctgcagAGTAAAGACAAATCCTAAAAATGCAATCAGTGAGCATTTTTTACCAAGGTTCCTAGACTTCATAGTGTGGGGGCATGAACATGAATGTCTTGTTGATCCT
- - - - - - - - ctatcaa
- - - - - - - - - - - - - - - - - - - - - -aatcaaa
- - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgcg