Sequence
atgc intronic sequence ATGC exonic sequencegtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
---gtacttgtgcaacgttatactca--tcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
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gtactccctttatagagctatgcagagttccagattgttcac-atcttgaatactcctt---ttgctgatatc-------tgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
-gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttatt-actttg-ctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
|| | ||| | | | || | || | | | | || || || | ||| ||| ||| | | ||||||||||| ||||| ||||| ||||| |||||||||||||| || || || |||||| ||||||| || || || || || ||
gttaaatttgcttcactgggtttattttaat-gtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
||| | |||| | ||| | ||| | | | | | | ||| | | ||||||||||| || ||||| |||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || || |||
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgt--ttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
gtacttgt-gcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttca-accctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
||| | || |||| ||| || | | | | |||| | || || | | | | | | | | | | ||||||||||| || |||||||||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || ||||||
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtactt-attactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
||| | || |||| | | || | | | ||| | | | | | ||| | | ||||||||||| || ||||| || ||||| |||||||| ||||| || || ||||||||| |||| ||||||||||| || || |||
gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgt--ttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
---------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
|| | | | ||| |||| | ||| | || |||| || | ||| | | || | | |||| | | ||||||||||| ||||| || |||||||||||||||||||| || || || || |||||||| ||||||||||| || || ||||||
gttaaatttgtccctctccaagtgtatattgatctcacct-ttattagtttgctgtgcatatcaactca-tgttcttgcccctct--ttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA06G17940.1 (Glycine max), 3'ss of exon 22
-gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattacttt--gctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
|| | ||| | | | || | || | | | | || || || ||| ||| ||| | | ||||||||||| ||||| |||||||| ||||||||||||||||| || ||||| |||||| ||||||| || || || || || ||
gttagatatgcttcactgggtttattttaat-gtctctgttatcagttagttgttcattttaactgcattcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAATACGTGAAAGCTGTTTTTTCCCTGGCAAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
gtacttgt-gcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttca-accctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
||| | || |||| ||| ||| | | | || |||| | | ||| || ||| | | | | | | ||||||||||| || |||||||||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || ||||||
gtattagttgcaaatttaaactgttttgctctactctgtattttcctt--tcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
---------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
|| | | || |||| | || | || |||| || | || ||| |||| ||| | | ||||||||||| ||||| || |||||||||||||||||||| || || || || |||||||| ||||||||||| || || ||||||
gttaaatttgtctctctctaagtgtatattgatttcacct-ttattagtttgctgtgcatacaactc----attttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
--gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaacta-taacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
| |||||| | || | | | | | | |||| | ||| || | || | |||| | | | ||||||||||| || ||||| |||||||| |||||||| || || || || || |||||| | ||||||||| |||| || || |||
gtaaatatgtgcatcaaaatggtgactatgcagctctct--tttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
upper sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattacttt--------gctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
| | | | | | | | | ||| || | || | || ||||| ||| |||| |||| || | | | ||||||||||||||||| || || |||||||| || ||||| |||||||| || |||||| ||||||||||| | || ||||||||
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttc-ttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
ctgtaac putative branch site (score: 3)
ttattacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA