Sequence
atgc intronic sequence ATGC exonic sequence...ctatatattgtacatcaagatagatatctagtttttgtgcaacagattttgttttctgtaattttggcctctagtcaacaactgaacattgtggttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTACTGAAGTTGTCCTCAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G129554_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g51900.1 (Oryza sativa), 3'ss of exon 1
ctatatattgtacatcaagatagatatctagtttttgtgcaacagattttg-ttttctgtaattttggcctctagtcaacaactgaacattgtggttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTACTGAAGTTGTCCTCAGAAG
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tttcccaaaaaac-ttgcgacgtttttttagcaattccagcagacattcaggttttcaataatttgtgcaactgacgaatagtgtaatactgtgatttcagGAAGGGAAGGATGTGGTCGCTAAGGCCAAGACTGGCTCCGGAAAGACCTTTGCTTACCTTCTCCCTATGCTGCATGAGCTATTGAAGTTGTCTGCAGAAG
upper sequence: GRMZM2G129554_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s0794g00010.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------------------------------------------------ctatatattgtacatcaagatagatatctagtttttgtgcaacagattttgttttct-gtaattttggcctctagtcaacaactgaacattgtggttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTA----CTGAAGTTGTCCTCAGAAG
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gtcagtttgattccttacttctcccatttcgattttccattcatgatgctctgtttgtctggctggaaaatttaggaaaagaaaataacattagactcctctctctttccctctcttttttttttttaggatcagagttaattaattagttatctccgttttttcttgttgaattttc--cactgttacagGAAGGTAAGGATGTGGTTGCTAGAGCAAAGACTGGTTCCGGGAAGACGTTTGCGTACCTTCTTCCGTTGCTTCAGAAGTTGTTTTCTGAATCTGAGTCAA----
upper sequence: GRMZM2G129554_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s1390g00010.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------------------------------------------ctatatattgtacatcaagatagatatctagtttttgtgcaacagattttgttttctgtaatt--ttggcctc-tagtcaacaactgaacattgtg--gttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTACTGAAGTTGTCCTCAGAAG-
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gtcagtttgattccttacttatcccatttcgattttccattcatgatgctctgtttgtctggctggaaaatttaggaaaagaaaata-acattagactcctctctctttccctctctttttttttttaggatcagagttaattaattagttatctgcgttttttcttgttgaattttccactgttacagGAAGGTAAGGATGTGGTTGCTAGAGCAAAGACTGGTTCCGGGAAGACGTTTGCGTACCTTCTTCCGTTGCTTCAGAAGTTGTTCT-GTGAATCTGAGTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgttttctgtaattttggcctctagtcaacaactgaacattgtggttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTACTGAAGTTGTCCTCAGAAG
ttttctgtaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctatatattgtacatcaagatagatatctagtttttgtgcaacagattttgttttctgtaattttggcctctagtcaacaactgaacattgtggttccagGAAGGGAAGGATGTGGTTGCAAAGGCCAAGACTGGCTCTGGGAAGACCTTTGCCTATCTTCTCCCACTTCTGCACGAGCTACTGAAGTTGTCCTCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - -gtacatc
- - - - - - - - - - - - - - - gtttttg
- - - - - - - - - - - - - - - - - - - gcaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacaac